Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007741.1 Hibiscus syriacus cultivar Beakdansim tig00110004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1550271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:123 original size:31 final size:31
Alignment explanation
Indices: 80--144 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
70 AAGAGTCAAG
* * * *
80 GGTTGCCTATGTCTTTTGGGATATATGGACA
1 GGTTACCTATGTCCTTCGGGATACATGGACA
*
111 GGTTACCTATGTCCTTCGGGATACATGGATA
1 GGTTACCTATGTCCTTCGGGATACATGGACA
142 GGT
1 GGT
145 CATTTGGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.35
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGATACATGGACA
Found at i:5519 original size:29 final size:29
Alignment explanation
Indices: 5444--5525 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
5434 TAAATTGGCA
* *
5444 TTTTCCCGATATATCACCCTTTGACTTTAT
1 TTTTCCCGATCTAACACCCTTTGAC-TTAT
* * *
5474 ATTTCTCTATC-AGACACCCTTTAGAC-TAT
1 TTTTCCCGATCTA-ACACCCTTT-GACTTAT
5503 TTTTCCCGATCTAACACCCTTTG
1 TTTTCCCGATCTAACACCCTTTG
5526 CAATAAAGCG
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 1 0.02
29 21 0.51
30 16 0.39
31 3 0.07
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (29 bp):
TTTTCCCGATCTAACACCCTTTGACTTAT
Found at i:5855 original size:17 final size:17
Alignment explanation
Indices: 5829--5861 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
5819 TTTTGTTTTT
5829 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
5847 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
5862 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:5863 original size:17 final size:19
Alignment explanation
Indices: 5824--5863 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
5814 TAATATTTTG
*
5824 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
5843 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
5859 TTTTA
1 TTTTA
5864 TTTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:8109 original size:14 final size:15
Alignment explanation
Indices: 8090--8118 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8080 TTTATTGGAC
8090 TTTTTTATT-TTTAT
1 TTTTTTATTATTTAT
8104 TTTTTTATTATTTAT
1 TTTTTTATTATTTAT
8119 CATTTAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATTATTTAT
Found at i:10615 original size:21 final size:21
Alignment explanation
Indices: 10589--10634 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
10579 TCACGAAGCA
10589 GTTCTTCAGGTGGAGATGATG
1 GTTCTTCAGGTGGAGATGATG
* *
10610 GTTCTTCTGGTGGAGATTATG
1 GTTCTTCAGGTGGAGATGATG
10631 GTTC
1 GTTC
10635 CTCTATACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.11, G:0.35, T:0.39
Consensus pattern (21 bp):
GTTCTTCAGGTGGAGATGATG
Found at i:21472 original size:22 final size:21
Alignment explanation
Indices: 21445--21516 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
21435 TTTAGTGCAG
21445 AGGGAA-TCATTACCCCCTTGA
1 AGGGAACTCATT-CCCCCTTGA
*
21466 AGGGGAACTGATTCCCCCTTTGA
1 A-GGGAACTCATTCCCCC-TTGA
*
21489 ATGGGAACTGATTCCCTCCTTG-
1 A-GGGAACTCATTCCC-CCTTGA
21511 AGGGAA
1 AGGGAA
21517 TCGATACCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
21 6 0.13
22 11 0.24
23 26 0.58
24 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
AGGGAACTCATTCCCCCTTGA
Found at i:21511 original size:23 final size:22
Alignment explanation
Indices: 21457--21511 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 22
21447 GGAATCATTA
21457 CCCCCTTGAAGGGGAACTGATT
1 CCCCCTTGAAGGGGAACTGATT
*
21479 CCCCCTTTGAATGGGAACTGATT
1 CCCCC-TTGAAGGGGAACTGATT
21502 CCCTCCTTGA
1 CCC-CCTTGA
21512 GGGAATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 23 0.77
24 2 0.07
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (22 bp):
CCCCCTTGAAGGGGAACTGATT
Found at i:21989 original size:14 final size:14
Alignment explanation
Indices: 21965--22005 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
21955 ACGTATTATG
21965 ATTTT-CAAACATT
1 ATTTTCCAAACATT
*
21978 ATTTTCCAAACAGT
1 ATTTTCCAAACATT
*
21992 -TTTTCAAAACATT
1 ATTTTCCAAACATT
22005 A
1 A
22006 CCCTTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (14 bp):
ATTTTCCAAACATT
Found at i:23369 original size:17 final size:17
Alignment explanation
Indices: 23347--23383 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23337 AAAGGGGGAG
23347 AAATGTTAAAATGTTTT
1 AAATGTTAAAATGTTTT
23364 AAATGTTAAAATGTTTT
1 AAATGTTAAAATGTTTT
23381 AAA
1 AAA
23384 GGGGAGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
AAATGTTAAAATGTTTT
Found at i:32634 original size:3 final size:3
Alignment explanation
Indices: 32626--32660 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
32616 ATATGTAAAT
32626 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32661 CCCCGAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:32994 original size:43 final size:43
Alignment explanation
Indices: 32945--33086 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
32935 ATAACATGGT
*
32945 TCCTACGTGATTAGGACGACTGGTTATCTAGGGGTGACACAGC
1 TCCTACGTGATGAGGACGACTGGTTATCTAGGGGTGACACAGC
* * * * * * *
32988 TCCTACGTGATGAAGAGGTCTGG---TC-GGGGGATGGCACGGT
1 TCCTACGTGATGAGGACGACTGGTTATCTAGGGG-TGACACAGC
* * *
33028 TCCTACGTGATGAGGACGATTGGTTATCTAAGGGTGACATAGC
1 TCCTACGTGATGAGGACGACTGGTTATCTAGGGGTGACACAGC
**
33071 TCCTGTGTGATGAGGA
1 TCCTACGTGATGAGGA
33087 GGTCTAGTCA
Statistics
Matches: 74, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
39 4 0.05
40 27 0.36
43 40 0.54
44 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.26
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGACTGGTTATCTAGGGGTGACACAGC
Found at i:33081 original size:83 final size:83
Alignment explanation
Indices: 32942--33128 Score: 266
Period size: 83 Copynumber: 2.3 Consensus size: 83
32932 GTGATAACAT
* *
32942 GGTTCCTACGTGATTAGGACGACTGGTTATCTAGGGGTGACACAGCTCCTACGTGATGAAGAGGT
1 GGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGT
* * *
33007 CTGGTCGGGGGATGGCAC
66 CTAGTCAGGGGATGACAC
* * ** *
33025 GGTTCCTACGTGATGAGGACGATTGGTTATCTAAGGGTGACATAGCTCCTGTGTGATGAGGAGGT
1 GGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGT
33090 CTAGTCAGGGGATGACAC
66 CTAGTCAGGGGATGACAC
* *
33108 GGTTCCTAAGTGTTGAGGACG
1 GGTTCCTACGTGATGAGGACG
33129 GCATGACATC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
83 92 1.00
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (83 bp):
GGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGGTGACACAGCTCCTACGTGATGAAGAGGT
CTAGTCAGGGGATGACAC
Found at i:33336 original size:36 final size:36
Alignment explanation
Indices: 33290--33473 Score: 153
Period size: 36 Copynumber: 5.1 Consensus size: 36
33280 TATTCAAGAA
* *
33290 GGAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAG
1 GGAAATTGTCTCAAGCGAGACGAAATTTGTTTTAAG
* * *
33326 GGAAATTGTCTCAAGCGAGACAAAATTTATTTTTTAG
1 GGAAATTGTCTCAAGCGAGACGAAATTT-GTTTTAAG
* * * *
33363 AGAAAATTGTCT----TGAGATGGAATTTGTTTTAAG
1 -GGAAATTGTCTCAAGCGAGACGAAATTTGTTTTAAG
** *
33396 ATAAATTGTCTCAAGCGAGACAAAATTTGTTTTAAG
1 GGAAATTGTCTCAAGCGAGACGAAATTTGTTTTAAG
* * *
33432 GGAAATATGTCTCTAGGGAGACGACACTTTG-TTTAAG
1 GGAAAT-TGTCTCAAGCGAGACGA-AATTTGTTTTAAG
*
33469 AGAAA
1 GGAAA
33474 CAACATCAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
32 9 0.08
33 6 0.05
34 9 0.08
36 47 0.41
37 30 0.26
38 15 0.13
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (36 bp):
GGAAATTGTCTCAAGCGAGACGAAATTTGTTTTAAG
Found at i:33816 original size:4 final size:4
Alignment explanation
Indices: 33766--33800 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
33756 ATGTGTCATA
33766 TATG TATG --TG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
33801 GTTGATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:37352 original size:60 final size:61
Alignment explanation
Indices: 37259--37378 Score: 170
Period size: 62 Copynumber: 2.0 Consensus size: 61
37249 TCAAACAATA
* ** * * *
37259 AACAATCAAATATAGTAAATGTGTCAGTAT-AAAAAATCAAATATCAAGCATATATTATAT
1 AACAATCAAACATAAAAAATGTGCCAATATAAAAAAATCAAATATCAAGCAGATATTATAT
37319 AACAATCAAACATAAAAAATGTGCCAATATAAAAAAAATCAAATATCAAGCAGATATTAT
1 AACAATCAAACATAAAAAATGTGCCAATAT-AAAAAAATCAAATATCAAGCAGATATTAT
37379 TGAAAGATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 25 0.48
62 27 0.52
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.26
Consensus pattern (61 bp):
AACAATCAAACATAAAAAATGTGCCAATATAAAAAAATCAAATATCAAGCAGATATTATAT
Found at i:38128 original size:5 final size:5
Alignment explanation
Indices: 38118--38148 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
38108 TGTCGCAAAG
*
38118 ATAAA ATAAA ATAAA ATAAA ACAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
38149 GTGAAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:55520 original size:17 final size:17
Alignment explanation
Indices: 55498--55535 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
55488 GTCCTTCCTA
55498 CATAATAGGAAATATAT
1 CATAATAGGAAATATAT
55515 CATAATAGGAAATATAT
1 CATAATAGGAAATATAT
55532 CATA
1 CATA
55536 GGCCACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (17 bp):
CATAATAGGAAATATAT
Found at i:68097 original size:2 final size:2
Alignment explanation
Indices: 68090--68143 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
68080 CTCCCCTAAA
68090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68132 AT AT AT AT AT AT
1 AT AT AT AT AT AT
68144 GAATAAAGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70641 original size:14 final size:14
Alignment explanation
Indices: 70622--70651 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
70612 GATGGAAAAG
70622 GAGGATATTTCCAA
1 GAGGATATTTCCAA
70636 GAGGATATTTCCAA
1 GAGGATATTTCCAA
70650 GA
1 GA
70652 CGACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (14 bp):
GAGGATATTTCCAA
Found at i:74593 original size:19 final size:20
Alignment explanation
Indices: 74569--74622 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
74559 ATCTAATTTT
74569 GGTATCGATACCAGTATG-G
1 GGTATCGATACCAGTATGAG
* *
74588 GGTATCGGTACCTTAGTATGAT
1 GGTATCGATACC--AGTATGAG
*
74610 AGTATCGATACCA
1 GGTATCGATACCA
74623 TAGTAAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 11 0.39
20 1 0.04
21 6 0.21
22 10 0.36
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (20 bp):
GGTATCGATACCAGTATGAG
Found at i:74674 original size:94 final size:94
Alignment explanation
Indices: 74514--74700 Score: 227
Period size: 94 Copynumber: 2.0 Consensus size: 94
74504 ACCTATGAGG
* * * *
74514 TAGTATTGATACCATAGTAAGGGGTATCGATCCTAGAAACATCGAATCTAATTTTGGTATCGATA
1 TAGTATCGATACCATAGTAA-GGGTATCAATCCTAGAAACATCGAACCTAATTTTGGTATCAATA
* * *
74579 CCAGTATGGGGTATCGGTACCTTAGTATGA
65 CCAGAAGGGGGTATCGGTACCATAGTATGA
* *
74609 TAGTATCGATACCATAGTAA-GGTATCAATACC-AGGGAACATCGAACC-ATTTTTTGGTATCAA
1 TAGTATCGATACCATAGTAAGGGTATCAAT-CCTA-GAAACATCGAACCTA-ATTTTGGTATCAA
*
74671 TACCCGAAGGGGGTATCGGTACCATAGTAT
63 TACCAGAAGGGGGTATCGGTACCATAGTAT
74701 AAAAGTATTG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
93 10 0.13
94 50 0.63
95 19 0.24
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (94 bp):
TAGTATCGATACCATAGTAAGGGTATCAATCCTAGAAACATCGAACCTAATTTTGGTATCAATAC
CAGAAGGGGGTATCGGTACCATAGTATGA
Found at i:75064 original size:2 final size:2
Alignment explanation
Indices: 75027--75052 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75017 TTAAAAATAC
75027 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
75053 GCATTGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75167 original size:55 final size:55
Alignment explanation
Indices: 75080--75404 Score: 542
Period size: 55 Copynumber: 5.9 Consensus size: 55
75070 CTATGTGTAC
* *
75080 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAATTTGATGAATTACCG
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
* *
75135 TATAGGCACTTCGTGTGCATATTCACGGAATTCATCATAATTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
* *
75190 TACAGGCACATCGTGTGCATATTCACAGAATTCATCATAAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
* *
75245 TACAGGCACTTCGTGTGCATATTCACAGAATTCATCATAAGTTGATGAATCATCG
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
* *
75300 TACAGGCACTTCGTGTGCATATTCATGGAATTCATCATAAGTTTATGAATCACCG
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
* *
75355 TACAGGCACTTCGTGTTCATATTCACGGAATTCATCATGAGTTGATGAAT
1 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAAT
75405 TTTCGTGTAG
Statistics
Matches: 254, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 254 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (55 bp):
TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCG
Found at i:76205 original size:20 final size:20
Alignment explanation
Indices: 76168--76205 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
76158 GGTCGTTTCT
*
76168 AGTCGTTGGTAGTCTTTTAG
1 AGTCGTTGGTAGTATTTTAG
76188 AGTCGTTGGGTA-TATTTT
1 AGTCGTT-GGTAGTATTTT
76206 TCTCTGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.16, C:0.08, G:0.29, T:0.47
Consensus pattern (20 bp):
AGTCGTTGGTAGTATTTTAG
Found at i:79532 original size:20 final size:20
Alignment explanation
Indices: 79507--79544 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
79497 TCGTTAGGGC
79507 CTTATGGTATCGATACTATG
1 CTTATGGTATCGATACTATG
79527 CTTATGGTATCGATACTA
1 CTTATGGTATCGATACTA
79545 CTATACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
CTTATGGTATCGATACTATG
Found at i:82769 original size:51 final size:51
Alignment explanation
Indices: 82699--82821 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
82689 GGAGTGATTT
* * * *
82699 TAGGTTAAAGTAGTATAGGGTTCGTTAAGGTGAAAATGGTAAAGTATTTTA
1 TAGGTTAAAGTGGTTTAGGGTTCGTTAAGGTGAAAATGGTAAAGGATTATA
** * * * * *
82750 TAGGTTAAAGTGGTTTAGGGTTTTTTAAGGTGAGAGTGGTTAAGGGTTATG
1 TAGGTTAAAGTGGTTTAGGGTTCGTTAAGGTGAAAATGGTAAAGGATTATA
82801 TAGGTTAAAGTGGTTTAGGGT
1 TAGGTTAAAGTGGTTTAGGGT
82822 AAGGTTCGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.01, G:0.33, T:0.37
Consensus pattern (51 bp):
TAGGTTAAAGTGGTTTAGGGTTCGTTAAGGTGAAAATGGTAAAGGATTATA
Found at i:82773 original size:25 final size:25
Alignment explanation
Indices: 82745--82821 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
82735 TGGTAAAGTA
82745 TTTTATAGGTTAAAGTGGTTTAGGG
1 TTTTATAGGTTAAAGTGGTTTAGGG
* * * *
82770 TTTTTTAAGGTGAGAGTGGTTAAGGG
1 TTTTAT-AGGTTAAAGTGGTTTAGGG
* *
82796 TTATGTAGGTTAAAGTGGTTTAGGG
1 TTTTATAGGTTAAAGTGGTTTAGGG
82821 T
1 T
82822 AAGGTTCGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 22 0.52
26 20 0.48
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (25 bp):
TTTTATAGGTTAAAGTGGTTTAGGG
Found at i:82780 original size:26 final size:26
Alignment explanation
Indices: 82745--82821 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
82735 TGGTAAAGTA
82745 TTTTATAGGTTAAAGTGGTTTAGGGTT
1 TTTTA-AGGTTAAAGTGGTTTAGGGTT
* * *
82772 TTTTAAGGTGAGAGTGGTTAAGGGTT
1 TTTTAAGGTTAAAGTGGTTTAGGGTT
* *
82798 ATGT-AGGTTAAAGTGGTTTAGGGT
1 TTTTAAGGTTAAAGTGGTTTAGGGT
82822 AAGGTTCGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.40
26 20 0.48
27 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (26 bp):
TTTTAAGGTTAAAGTGGTTTAGGGTT
Found at i:86130 original size:136 final size:138
Alignment explanation
Indices: 85946--86199 Score: 415
Period size: 136 Copynumber: 1.9 Consensus size: 138
85936 ATGGGACGTG
* *
85946 GCACTTTTCCTTTTTGTTAGAAAATAGGTTTGTAATTGCCCTATTATGTGTGATGTCCCCCAACG
1 GCACATTTCCTTTTTGTTAGAAAATAGGTTTATAATTGCCCTATTATGTGTGATGTCCCCCAACG
* *
86011 G-GCCACTATTCACGTCAACACCTATTATGTTTGATGGGACGCAACAATGTGGCGAAAGAGCTTC
66 GAG-CACTATTCACATCAACACCTACTATGTTTGATGGGACGCAACAATGTGGCGAAAGAGCTTC
86075 TTGTGGGAA
130 TTGTGGGAA
* *
86084 GCACATTTCCTTTTTG-TAGAGAATAGG-TTATAATTGCCCTATTATGTGTGATGTCCCCCGACG
1 GCACATTTCCTTTTTGTTAGAAAATAGGTTTATAATTGCCCTATTATGTGTGATGTCCCCCAACG
*
86147 GAGTACTATTCACATCAACACCTACTATGTTTGATGGGACGCAACAATGTGGC
66 GAGCACTATTCACATCAACACCTACTATGTTTGATGGGACGCAACAATGTGGC
86200 ATGCAAAAGA
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
136 82 0.76
137 11 0.10
138 15 0.14
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (138 bp):
GCACATTTCCTTTTTGTTAGAAAATAGGTTTATAATTGCCCTATTATGTGTGATGTCCCCCAACG
GAGCACTATTCACATCAACACCTACTATGTTTGATGGGACGCAACAATGTGGCGAAAGAGCTTCT
TGTGGGAA
Found at i:86913 original size:18 final size:19
Alignment explanation
Indices: 86890--86927 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
86880 TGAATTTTAA
*
86890 AAACATTT-AACAAACATT
1 AAACATTTAAAAAAACATT
86908 AAACATTTAAAAAAACATT
1 AAACATTTAAAAAAACATT
86927 A
1 A
86928 CAAAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (19 bp):
AAACATTTAAAAAAACATT
Found at i:98571 original size:26 final size:26
Alignment explanation
Indices: 98541--98603 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 26
98531 TGCATCGGTA
98541 CACTGTTCACTGTTCACGGGATTGTT
1 CACTGTTCACTGTTCACGGGATTGTT
98567 CACTGTTCACTGTTCACGGGATTGTT
1 CACTGTTCACTGTTCACGGGATTGTT
98593 CAC-GATTCACT
1 CACTG-TTCACT
98604 ATGCATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
CACTGTTCACTGTTCACGGGATTGTT
Found at i:100085 original size:34 final size:36
Alignment explanation
Indices: 100031--100105 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
100021 AATAATTATA
*
100031 TAAATATTATTTTAATAAAA-AATATAACC-TTTTT
1 TAAATATTATTTTAATAAAAGAATATAACCACTTTT
100065 TAAATAATTATTTATAA-AAAAGAATATAACCACTTTT
1 TAAAT-ATTATTT-TAATAAAAGAATATAACCACTTTT
100102 TAAA
1 TAAA
100106 AAAATATACT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 5 0.14
35 11 0.31
36 12 0.33
37 8 0.22
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (36 bp):
TAAATATTATTTTAATAAAAGAATATAACCACTTTT
Found at i:106201 original size:3 final size:3
Alignment explanation
Indices: 106193--106271 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
106183 ACACTTTGAC
106193 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
106241 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
106272 ATTGAACCAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:108316 original size:23 final size:25
Alignment explanation
Indices: 108290--108337 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
108280 AACAAAACCC
*
108290 AAAC-AGTGGCTAAA-ATGAATAAA
1 AAACTAGTGACTAAATATGAATAAA
*
108313 AAACTAGTGACTAAATTTGAATAAA
1 AAACTAGTGACTAAATATGAATAAA
108338 CCAGAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 8 0.38
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (25 bp):
AAACTAGTGACTAAATATGAATAAA
Found at i:110339 original size:134 final size:135
Alignment explanation
Indices: 110022--110746 Score: 892
Period size: 134 Copynumber: 5.4 Consensus size: 135
110012 ATTTCATTGT
* * * * *
110022 TCTTCAGGGAAGATTGAATCGGAATCGATTTGCTTCACTG-GTCTTCAGGAAGACCATATCTAAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
*** * * * * *
110086 AGAAGAAGAATTTGCTCCACTACACTTTAGGGGAGATTAGACTC-ATAAAACTTTGATCCACTTT
66 AGAAGAAGCGCTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTTC
*
110150 ACTAT
131 ACTAC
* * *
110155 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTTAC-CTCTCTTCAGGAAGACTAAATCTGAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
* * *
110219 AGAAGAAGCGCATGCTCCACTACTCTTTAGGGGAGATCAAACTCAAGAAAATTTTGATCCACTTT
66 AGAAGAAGCGCTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTTC
110284 ACTAC
131 ACTAC
* *
110289 TCTTTAGGGAAGATTGAATCAGAATCAATTTTCTTCACTGTC-CTTCAGGAAGACCAAATCTGAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
* * * *
110353 AGAATAAGC-ATCTGCTCCACTACTCTTTAGGGGAAATCAGACTCGAGAAAATTTTGATCCACTT
66 AGAAGAAGCGCT-TGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTT
*
110417 CACTGC
130 CACTAC
* *
110423 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTG-GTCTTCAGGAAGACCAAATCTGAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
* * * * * * * * *
110487 AGAAGAAGCGTTTGGTCCACTAATTTTTA-GTGATATCGGACTTAAGAAAATTTTGATCCACATC
66 AGAAGAAGCGCTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTTC
*
110551 ACTGC
131 ACTAC
* * * * *
110556 TCTTAAGGGAATATTGAATCAGAATCGATTTGCTTCGCTG-CTCTTCGGGAAGACCAAATCTGAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
* * * * * *
110620 AGAAGACGTGCGTGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTAC
66 AGAAGAAGCGCTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTTC
*
110685 ACTTC
131 ACTAC
* * *
110690 TCTTCAGGGAATATTGAATAAGAATTAATTTGCTTCACTG-CTCTTCAGGAAGACCAA
1 TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAA
110747 TTTTGAAAAT
Statistics
Matches: 512, Mismatches: 73, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
133 207 0.40
134 302 0.59
135 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (135 bp):
TCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGTCTCTTCAGGAAGACCAAATCTGAA
AGAAGAAGCGCTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAATTTTGATCCACTTC
ACTAC
Found at i:110574 original size:267 final size:267
Alignment explanation
Indices: 110022--110746 Score: 949
Period size: 267 Copynumber: 2.7 Consensus size: 267
110012 ATTTCATTGT
* * * *
110022 TCTTCAGGGAAGATTGAATCGGAATCGATTTGCTTCACTGGT-CTTCAGGAAGACCATATCTAAA
1 TCTTAAGGGAAGATTGAATCAGAATCGATTTGCTTCACT-GTCCTTCAGGAAGACCAAATCTGAA
* * * * * *
110086 AGAAGAAGAATTTGCTCCACTACACTTTAGGGGAGATTAGACTC-ATAAAACTTTGATCCACTTT
65 AGAA-AAGCATCTGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTTC
* * *
110150 ACTATTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTTACCT-CTCTTCAGGAAGACTAAAT
129 ACTACTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCA-CTGCTCTTCAGGAAGACCAAAT
*
110214 CTGAAAGAAGAAGCGCATGCTCCACTACTCTTTAGGGGAGATCAAACTCAAGAAAATTTTGATCC
193 CTGAAAGAAGAAGCGCATGCTCCACTAATCTTTAGGGGAGATCAAACTCAAGAAAATTTTGATCC
* *
110279 ACTTTACTAC
258 ACATCACTAC
* * *
110289 TCTTTAGGGAAGATTGAATCAGAATCAATTTTCTTCACTGTCCTTCAGGAAGACCAAATCTGAAA
1 TCTTAAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGTCCTTCAGGAAGACCAAATCTGAAA
* *
110354 GAATAAGCATCTGCTCCACTACTCTTTAGGGGAAATCAGACTCGAGAAAATTTTGATCCACTTCA
66 GAA-AAGCATCTGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTTCA
* * *
110419 CTGCTCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGGTCTTCAGGAAGACCAAATCT
130 CTACTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGCTCTTCAGGAAGACCAAATCT
** * * * * ** *
110484 GAAAGAAGAAGCGTTTGGTCCACTAATTTTTA-GTGATATCGGACTTAAGAAAATTTTGATCCAC
195 GAAAGAAGAAGCGCATGCTCCACTAATCTTTAGGGGAGATCAAACTCAAGAAAATTTTGATCCAC
*
110548 ATCACTGC
260 ATCACTAC
* * *
110556 TCTTAAGGGAATATTGAATCAGAATCGATTTGCTTCGCTG-CTCTTCGGGAAGACCAAATCTGAA
1 TCTTAAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGTC-CTTCAGGAAGACCAAATCTGAA
* * *
110620 AGAAGA-CGTGCGTGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTA
65 AGAAAAGCAT-C-TGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTT
* * * *
110684 CACTTCTCTTCAGGGAATATTGAATAAGAATTAATTTGCTTCACTGCTCTTCAGGAAGACCAA
128 CACTACTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGCTCTTCAGGAAGACCAA
110747 TTTTGAAAAT
Statistics
Matches: 401, Mismatches: 51, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
265 2 0.00
266 5 0.01
267 293 0.73
268 101 0.25
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (267 bp):
TCTTAAGGGAAGATTGAATCAGAATCGATTTGCTTCACTGTCCTTCAGGAAGACCAAATCTGAAA
GAAAAGCATCTGCTCCACTACTCTTTAGGGGAGATTAGACTCGAGAAAATTTTGATCCACTTCAC
TACTCTTCAGGGAAGATTGAATCAGAATCAATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTG
AAAGAAGAAGCGCATGCTCCACTAATCTTTAGGGGAGATCAAACTCAAGAAAATTTTGATCCACA
TCACTAC
Found at i:111505 original size:45 final size:43
Alignment explanation
Indices: 111410--111647 Score: 133
Period size: 45 Copynumber: 5.3 Consensus size: 43
111400 TCCTTTCTGT
* * * * *
111410 GAGAAAATCAAGAATAACACCAGTAAAAGGTTGACTCTTCTTCAC
1 GAGAAAGTCAAGAAGAACAACACTAAAAGATTGACTC-T-TTCAC
* *
111455 AAGAAAGTCAAGAAGAACAACACTAAAATATTGACTCATTGTCAC
1 GAGAAAGTCAAGAAGAACAACACTAAAAGATTGACTC-TT-TCAC
* * *
111500 GAGAAAGTCAAGGAAG-ATAACATTGAAAGATTGACTCCTCTTCAC
1 GAGAAAGTCAA-GAAGAACAACACTAAAAGATTGACT-CT-TTCAC
* * * * * * * *
111545 GAGTAATTCAAAAAGGACAAAACTAAAATATTAACTTTTCTTCAC
1 GAGAAAGTCAAGAAGAACAACACTAAAAGATTGAC-TCT-TTCAC
* * *
111590 -ACGAAATTCAAGGAAG-ACAACA-TCGAAAGATTGACTCTCTTCAT
1 GA-GAAAGTCAA-GAAGAACAACACT-AAAAGATTGACTCT-TTCAC
*
111634 GAGAAAATCAAGAA
1 GAGAAAGTCAAGAA
111648 TGACATTCAA
Statistics
Matches: 151, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
43 3 0.02
44 21 0.14
45 117 0.77
46 10 0.07
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (43 bp):
GAGAAAGTCAAGAAGAACAACACTAAAAGATTGACTCTTTCAC
Found at i:111534 original size:90 final size:89
Alignment explanation
Indices: 111435--111647 Score: 241
Period size: 90 Copynumber: 2.4 Consensus size: 89
111425 AACACCAGTA
* * * * *
111435 AAAGGTTGACTCTTCTTCACAAGAAAGTCAAGAAGAACAACACTAAAATATTGACTCATT-GTCA
1 AAAGATTGACTC-TCTTCACGAGAAAATCAAGAAGAACAAAACTAAAATATTAACT-ATTCGTCA
* *
111499 CGA-GAAAGTCAAGGAAGATAACATTG
64 C-ACGAAAGTCAAGGAAGACAACATCG
* * * * * *
111525 AAAGATTGACTCCTCTTCACGAGTAATTCAAAAAGGACAAAACTAAAATATTAACTTTTCTTCAC
1 AAAGATTGACT-CTCTTCACGAGAAAATCAAGAAGAACAAAACTAAAATATTAACTATTCGTCAC
*
111590 ACGAAATTCAAGGAAGACAACATCG
65 ACGAAAGTCAAGGAAGACAACATCG
*
111615 AAAGATTGACTCTCTTCATGAGAAAATCAAGAA
1 AAAGATTGACTCTCTTCACGAGAAAATCAAGAA
111648 TGACATTCAA
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
89 21 0.20
90 81 0.79
91 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (89 bp):
AAAGATTGACTCTCTTCACGAGAAAATCAAGAAGAACAAAACTAAAATATTAACTATTCGTCACA
CGAAAGTCAAGGAAGACAACATCG
Found at i:111750 original size:38 final size:38
Alignment explanation
Indices: 111615--112197 Score: 518
Period size: 38 Copynumber: 14.8 Consensus size: 38
111605 GACAACATCG
* * *
111615 AAAGATTGAC-TCTCTTCATGAGAAAATCAAGAATGACATTC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A--C
* * *
111656 AAATATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
111694 ----ATTGACTTCTCTTAACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
111728 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
111766 ATTGAAAGATTTAC-TCTTCTTCACGAGGGAGTTAAGAATATA-
1 ----AAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATA-AC
* * * * *
111808 ATTGAATGATTGACTCCTCTTAATGAGGGAGTCAAGAATAAA
1 A---AA-GATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
*
111850 AAAGATTGACTTTTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
111888 ATTGAAAGATTGA-TTCCTCTT-ACTAAGGGAGTCTAGAATAAC
1 ----AAAGATTGACTT-CTCTTCAC-GAGGAAGTCAAGAATAAC
*
111930 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
111968 AAAGATTGACTTTTCTTCACTAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* * *
112006 ATTGAAAGATTGACTTCTGTTCACAAGGGAGTCAAGAATAAC
1 ----AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** * *
112048 AAAGATCAAATTCTCTTCATGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
** *
112086 AAAGATCAAATTCTCTTCACGAGGAAGTCAAGAATAAC
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
* *
112124 AAAGATTAACTTCTCTTCACGAGGAAGTCAAGAATGACATTG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-A--C
* *
112166 AAAGATTGACTCCTCTTCACGAGGGAGTCAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAG
112198 TTAAAGCTTT
Statistics
Matches: 454, Mismatches: 55, Indels: 65
0.79 0.10 0.11
Matches are distributed among these distances:
34 31 0.07
38 227 0.50
39 7 0.02
40 2 0.00
41 19 0.04
42 166 0.37
43 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (38 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC
Found at i:111854 original size:80 final size:79
Alignment explanation
Indices: 111615--112124 Score: 345
Period size: 80 Copynumber: 6.5 Consensus size: 79
111605 GACAACATCG
* * * * * * * * **
111615 AAAGATTGACTCTCTTCATGAGAAAATCAAGAATGACATTCAAATATTGACTCCTCTTCACGAGG
1 AAAGATTGACTTTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTAATAAGG
111680 GAGTCAAGAAT---
66 GAGTCAAGAATAAA
* * * * * **
111691 -AACATTGACTTCTCTTAACGAGGAAGTCAAGAATAAC----AAAGATCGACTTCTCTTCACGAG
1 AAAGATTGACTT-TCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTAATAAG
*
111751 GAAGTCAAGAATAACA
65 GGAGTCAAGAATAA-A
* * * *
111767 TTGAAAGATTTACTCTTCTTCACGAGGGAGTTAAGAATATA-ATTGAATGATTGACTCCTCTTAA
1 ---AAAGATTGACT-TTCTTCACGAGGAAGTCAAGAATA-ACATTGAAAGATTGACTCCTCTTAA
*
111831 TGAGGGAGTCAAGAATAAA
61 TAAGGGAGTCAAGAATAAA
* *
111850 AAAGATTGACTTTTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGATTCCTCTTACTAAG
1 AAAGATTGAC-TTTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTAATAAG
* *
111915 GGAGTCTAGAATAAC
65 GGAGTCAAGAATAAA
** *
111930 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAA-A---AAAGATTGACTTTTCTTCACT-A
1 AAAGATTGACTT-TCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTT-AATAA
*
111990 GGAAGTCAAGAATAACA
64 GGGAGTCAAGAATAA-A
* * * ** * * *
112007 TTGAAAGATTGACTTCTGTTCACAAGGGAGTCAAGAATAAC----AAAGATCAAATTCTCTTCAT
1 ---AAAGATTGACTT-TCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTAAT
* * *
112068 GAGGAAGTCAAGAATAAC
62 AAGGGAGTCAAGAATAAA
** *
112086 AAAGATCAAATTCTCTTCACGAGGAAGTCAAGAATAACA
1 AAAGATTGACTT-TCTTCACGAGGAAGTCAAGAATAACA
112125 AAGATTAACT
Statistics
Matches: 355, Mismatches: 53, Indels: 51
0.77 0.12 0.11
Matches are distributed among these distances:
72 31 0.09
75 9 0.03
76 80 0.23
77 3 0.01
79 5 0.01
80 192 0.54
81 3 0.01
83 1 0.00
84 31 0.09
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (79 bp):
AAAGATTGACTTTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTAATAAGG
GAGTCAAGAATAAA
Found at i:111993 original size:118 final size:118
Alignment explanation
Indices: 111615--112197 Score: 630
Period size: 118 Copynumber: 4.9 Consensus size: 118
111605 GACAACATCG
* * * * * * *
111615 AAAGATTGAC-TCTCTTCATGAGAAAATCAAGAATGACATTCAAATATTGACTCCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACAAG
*
111679 GGAGTCAAGAATAAC----ATTGACTTCTCTTAACGAGGAAGTCAAGAATAAC
66 GGAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAGGAAGTCAAGAATAAA
* * * *
111728 AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTTACTCTTCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACAAG
* * * *
111793 GGAGTTAAGAATATA-ATTGAATGATTGACTCCTCTTAATGAGGGAGTCAAGAATAAA
66 GGAGTCAAGAATA-ACA---AA-GATTGACTTCTCTTAACGAGGAAGTCAAGAATAAA
* *
111850 AAAGATTGACTTTTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGATTCCTCTT-ACTAA
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCAC-AA
* *
111914 GGGAGTCTAGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAA
65 GGGAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAGGAAGTCAAGAATAAA
* * * *
111968 AAAGATTGACTTTTCTTCACTAGGAAGTCAAGAATAACATTGAAAGATTGACTTCTGTTCACAAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACAAG
** * * * *
112033 GGAGTCAAGAATAACAAAGATCAAATTCTCTTCATGAGGAAGTCAAGAATAAC
66 GGAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAGGAAGTCAAGAATAAA
** * * * *
112086 AAAGATCAAATTCTCTTCACGAGGAAGTCAAGAATAAC----AAAGATTAACTTCTCTTCACGAG
1 AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACAAG
* * * * *
112147 GAAGTCAAGAATGACATTGAAAGATTGACTCCTCTTCACGAGGGAGTCAAG
66 GGAGTCAAGAAT-A-A--CAAAGATTGACTTCTCTTAACGAGGAAGTCAAG
112198 TTAAAGCTTT
Statistics
Matches: 401, Mismatches: 52, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
113 9 0.02
114 89 0.22
115 2 0.00
116 1 0.00
118 195 0.49
119 4 0.01
121 3 0.01
122 98 0.24
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (118 bp):
AAAGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATTGAAAGATTGACTCCTCTTCACAAG
GGAGTCAAGAATAACAAAGATTGACTTCTCTTAACGAGGAAGTCAAGAATAAA
Found at i:114148 original size:7 final size:7
Alignment explanation
Indices: 114131--114369 Score: 139
Period size: 7 Copynumber: 32.0 Consensus size: 7
114121 ATTTGATTTA
114131 TTTTCTCT
1 TTTTCT-T
114139 TTTTCTT
1 TTTTCTT
114146 TTTTCTCT
1 TTTTCT-T
114154 TTTTC-T
1 TTTTCTT
*
114160 TATTCTT
1 TTTTCTT
114167 TTTCTCTT
1 TTT-TCTT
*
114175 TCTTCTT
1 TTTTCTT
114182 TTTTCTT
1 TTTTCTT
114189 TTCTATCTT
1 TT-T-TCTT
*
114198 TTCTCTTT
1 TTTTC-TT
114206 TTTCTCTT
1 TTT-TCTT
114214 TTTTCTT
1 TTTTCTT
*
114221 CTTTCTT
1 TTTTCTT
114228 TTCTATCTT
1 TT-T-TCTT
114237 TTCTATCTT
1 TT-T-TCTT
*
114246 TTCTCTT
1 TTTTCTT
*
114253 TTTTCCT
1 TTTTCTT
114260 TTTTCTT
1 TTTTCTT
114267 TTTT-TAT
1 TTTTCT-T
*
114274 CGCTTATCTT
1 ---TTTTCTT
*
114284 TTATCTT
1 TTTTCTT
114291 TTATT-TT
1 TT-TTCTT
*
114298 CTTT-TT
1 TTTTCTT
*
114304 CTTTCTT
1 TTTTCTT
114311 TTTTCTT
1 TTTTCTT
*
114318 TTCT-TT
1 TTTTCTT
114324 TTTTCTTT
1 TTTTC-TT
114332 CTTTCTCTT
1 -TTT-TCTT
114341 TTTTCTT
1 TTTTCTT
*
114348 TTTCCTT
1 TTTTCTT
114355 TCTTT-TT
1 T-TTTCTT
114362 ATTTTCTT
1 -TTTTCTT
114370 CTCTCTCCTT
Statistics
Matches: 188, Mismatches: 20, Indels: 46
0.74 0.08 0.18
Matches are distributed among these distances:
6 19 0.10
7 94 0.50
8 40 0.21
9 28 0.15
10 6 0.03
11 1 0.01
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTT
Found at i:114156 original size:9 final size:9
Alignment explanation
Indices: 114138--114350 Score: 98
Period size: 9 Copynumber: 22.2 Consensus size: 9
114128 TTATTTTCTC
114138 TTTT-TCTT
1 TTTTCTCTT
114146 TTTTCTC-T
1 TTTTCTCTT
*
114154 TTTTCTTATTCT
1 TTTTC-T-CT-T
114166 TTTTCTCTT
1 TTTTCTCTT
* *
114175 TCTTCTTTT
1 TTTTCTCTT
*
114184 TTCTTTTCTAT
1 TT-TTCTCT-T
114195 CTTTTCTCTT
1 -TTTTCTCTT
114205 TTTTCTCTT
1 TTTTCTCTT
114214 TTTTCTTCTT
1 TTTTC-TCTT
114224 TCTTT-TCTAT
1 T-TTTCTCT-T
* *
114234 CTTTTCTATC
1 -TTTTCTCTT
114244 TTTTCTCTT
1 TTTTCTCTT
114253 TTTTC-C-T
1 TTTTCTCTT
*
114260 TTTTCTTTT
1 TTTTCTCTT
*
114269 TTTATCGCTTAT
1 TTT-TCTC-T-T
*
114281 CTTTTATCTT
1 -TTTTCTCTT
*
114291 TTATTTTCTT
1 TT-TTCTCTT
*
114301 TTTCTTTCTT
1 TTT-TCTCTT
114311 TTTTCTTTTCTT
1 TTTTC---TCTT
114323 TTTT-TCTT
1 TTTTCTCTT
114331 TCTTTCTCTT
1 T-TTTCTCTT
114341 TTTTCT-TT
1 TTTTCTCTT
114349 TT
1 TT
114351 CCTTTCTTTT
Statistics
Matches: 160, Mismatches: 19, Indels: 52
0.69 0.08 0.23
Matches are distributed among these distances:
7 6 0.04
8 20 0.12
9 57 0.36
10 40 0.25
11 15 0.09
12 19 0.12
13 3 0.02
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:114186 original size:16 final size:16
Alignment explanation
Indices: 114131--114388 Score: 108
Period size: 16 Copynumber: 16.5 Consensus size: 16
114121 ATTTGATTTA
114131 TTTTCTCTTT-TTCTT
1 TTTTCTCTTTCTTCTT
114146 TTTTCTCTTT-TTC-T
1 TTTTCTCTTTCTTCTT
* *
114160 TATTCTTTTTC-TCTT
1 TTTTCTCTTTCTTCTT
*
114175 TCTTCT-TTT-TTCTT
1 TTTTCTCTTTCTTCTT
114189 TTCTATCT-TTTC-TCTT
1 TT-T-TCTCTTTCTTCTT
*
114205 TTTTCTCTTTTTTCTT
1 TTTTCTCTTTCTTCTT
*
114221 CTTTCT-TTTCTATCTT
1 TTTTCTCTTTCT-TCTT
114237 TTCTATCT-TTTC-TCTT
1 TT-T-TCTCTTTCTTCTT
*
114253 TTTTCCTTTTTCTT-TT
1 TTTT-CTCTTTCTTCTT
* *
114269 TTTATCGCTTATCTTTTAT
1 TTT-TCTCTT-TCTTCT-T
*
114288 CTTTTAT-TTTCTT-TT
1 -TTTTCTCTTTCTTCTT
114303 TCTTTCT-TTT-TTC--
1 T-TTTCTCTTTCTTCTT
*
114316 TTTTCT-TTTTTTCTT
1 TTTTCTCTTTCTTCTT
*
114331 TCTTTCTCTTTTTTC-T
1 T-TTTCTCTTTCTTCTT
*
114347 TTTTC-CTTTCTTTTT
1 TTTTCTCTTTCTTCTT
* *
114362 ATTTTCTTCTCTCTCCTT
1 -TTTTC-TCTTTCTTCTT
114380 TTTGTCTCT
1 TTT-TCTCT
114389 ATATTTTTCA
Statistics
Matches: 194, Mismatches: 18, Indels: 60
0.71 0.07 0.22
Matches are distributed among these distances:
12 8 0.04
13 4 0.02
14 32 0.16
15 45 0.23
16 57 0.29
17 24 0.12
18 19 0.10
19 2 0.01
20 3 0.02
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.74
Consensus pattern (16 bp):
TTTTCTCTTTCTTCTT
Found at i:114220 original size:39 final size:38
Alignment explanation
Indices: 114131--114350 Score: 193
Period size: 39 Copynumber: 5.7 Consensus size: 38
114121 ATTTGATTTA
*
114131 TTTTCTC-TTTTTCTTTTTTCTCTTTT-TCTTAT-TC-T
1 TTTTCTCTTTTTTCTTTTTTCT-TTTTATCTTTTCTCTT
*
114166 TTTTCTCTTTCTTCTTTTTTCTTTTCTATCTTTTCTCTT
1 TTTTCTCTTTTTTCTTTTTTCTTTT-TATCTTTTCTCTT
* * *
114205 TTTTCTCTTTTTTCTTCTTTCTTTTCTATCTTTTCTATC
1 TTTTCTCTTTTTTCTTTTTTCTTTT-TATCTTTTCTCTT
* ** *
114244 TTTTCTCTTTTTTCCTTTTTCTTTTTTTATCGCTTATCTT
1 TTTTCTCTTTTTT-CTTTTT-TCTTTTTATCTTTTCTCTT
* *
114284 TTATCTTTTATTTTCTTTTTCTTTCTTTTT-TCTTTTCT-TT
1 TTTTCTCTT-TTTTC--TTT-TTTCTTTTTATCTTTTCTCTT
114324 TTTTCT-TTCTTTCTCTTTTTTCTTTTT
1 TTTTCTCTT-TTT-TCTTTTTTCTTTTT
114351 CCTTTCTTTT
Statistics
Matches: 152, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
35 10 0.07
36 14 0.09
37 14 0.09
38 5 0.03
39 54 0.36
40 30 0.20
41 14 0.09
42 9 0.06
43 2 0.01
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (38 bp):
TTTTCTCTTTTTTCTTTTTTCTTTTTATCTTTTCTCTT
Found at i:114371 original size:25 final size:24
Alignment explanation
Indices: 114132--114358 Score: 102
Period size: 24 Copynumber: 9.2 Consensus size: 24
114122 TTTGATTTAT
*
114132 TTTC-TCTTTTTCTTT-TTTCTCTT
1 TTTCTTCTTTTTCTTTCTTTTTC-T
*
114155 TTTCTTATTCTTT-TTCTCTTTCTTCT
1 TTTCTTCTT-TTTCTT-TCTTT-TTCT
*
114181 TTT-TTC-TTTTCTATCTTTTCTCT
1 TTTCTTCTTTTTCTTTCTTTT-TCT
*
114204 TTT-TTCTCTTT-TTTCTTCTTTCT
1 TTTCTTCTTTTTCTTTCTT-TTTCT
*
114227 TTTCTATC-TTTTCTATCTTTTCTCT
1 TTTCT-TCTTTTTCTTTCTTTT-TCT
*
114252 TTT-TTCCTTTTTCTTT-TTTTATCG
1 TTTCTT-CTTTTTCTTTCTTTT-TCT
* *
114276 CTT-ATCTTTTATCTTT-TATTTTCTT
1 TTTCTTCTTTT-TCTTTCT-TTTTC-T
*
114301 TTTCTTTCTTTTTTCTTTTCTTTTTTT
1 TTTC-TTC-TTTTTC-TTTCTTTTTCT
* *
114328 CTTTCTTTCTCTTT-TTTCTTTTTCC
1 -TTTC-TTCTTTTTCTTTCTTTTTCT
114353 TTTCTT
1 TTTCTT
114359 TTTATTTTCT
Statistics
Matches: 160, Mismatches: 20, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
22 1 0.01
23 40 0.25
24 41 0.26
25 40 0.25
26 7 0.04
27 11 0.07
28 19 0.12
29 1 0.01
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTCTTCTTTTTCTTTCTTTTTCT
Found at i:114372 original size:34 final size:35
Alignment explanation
Indices: 114289--114373 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 35
114279 ATCTTTTATC
*
114289 TTTTATTTTCTT-T-TTCTTTCTTTTTTCTTTTCT
1 TTTTATTTTCTTCTCTTCTTTCTTTTTTCCTTTCT
* *
114322 TTTTTTCTTTCTTTCTCTTTTTTC-TTTTTCCTTTCT
1 TTTTAT-TTTC-TTCTCTTCTTTCTTTTTTCCTTTCT
114358 TTTTATTTTCTTCTCT
1 TTTTATTTTCTTCTCT
114374 CTCCTTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.11
34 10 0.23
35 6 0.14
36 17 0.39
37 6 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (35 bp):
TTTTATTTTCTTCTCTTCTTTCTTTTTTCCTTTCT
Found at i:121002 original size:3 final size:3
Alignment explanation
Indices: 120994--121023 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
120984 TGTAATTATT
*
120994 TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
121024 AATGAGTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:122118 original size:32 final size:28
Alignment explanation
Indices: 122077--122169 Score: 78
Period size: 32 Copynumber: 3.0 Consensus size: 28
122067 TACAGTATTA
122077 TTTATATATCCTTAGTATTTTTGTTAATAT
1 TTTATATATCCTTA-T-TTTTTGTTAATAT
* *
122107 TTTATGTATATCTTTAATTTTTTTTTGTTAACAT
1 TTTA--TATATCCTT-A---TTTTTTGTTAATAT
* *
122141 GTTATATATACTTATTTTTTGTTAATAT
1 TTTATATATCCTTATTTTTTGTTAATAT
122169 T
1 T
122170 CAATAAATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
28 13 0.26
30 4 0.08
31 1 0.02
32 15 0.30
33 1 0.02
34 15 0.30
35 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.62
Consensus pattern (28 bp):
TTTATATATCCTTATTTTTTGTTAATAT
Found at i:122159 original size:30 final size:30
Alignment explanation
Indices: 122078--122160 Score: 76
Period size: 34 Copynumber: 2.6 Consensus size: 30
122068 ACAGTATTAT
* * * * *
122078 TTATATATCCTTAGTATTTTTGTTAATATT
1 TTATATATACTTATTTTTTTTGTTAACATG
*
122108 TTATGTATATCTTTAATTTTTTTTTGTTAACATG
1 TTATATATA-C-TT-A-TTTTTTTTGTTAACATG
122142 TTATATATACTTATTTTTT
1 TTATATATACTTATTTTTT
122161 GTTAATATTC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
30 13 0.31
31 2 0.05
32 4 0.10
33 2 0.05
34 21 0.50
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (30 bp):
TTATATATACTTATTTTTTTTGTTAACATG
Found at i:122488 original size:41 final size:41
Alignment explanation
Indices: 122440--122522 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
122430 AAATTATAAA
122440 TTATATAAATGTTAAATAAATGGTGTTAAAAATATTATGCT
1 TTATATAAATGTTAAATAAATGGTGTTAAAAATATTATGCT
*
122481 TTATATAAATGTTAAATAAATGGTGTTAAAATTATTATGCT
1 TTATATAAATGTTAAATAAATGGTGTTAAAAATATTATGCT
122522 T
1 T
122523 ACATATTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.43
Consensus pattern (41 bp):
TTATATAAATGTTAAATAAATGGTGTTAAAAATATTATGCT
Found at i:122630 original size:20 final size:20
Alignment explanation
Indices: 122605--122663 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
122595 ATAAAATTAA
122605 GGATATACGAAATATTAAAC
1 GGATATACGAAATATTAAAC
122625 GGATATACGAAATATTAAAC
1 GGATATACGAAATATTAAAC
* *
122645 GGATTTACTAAATA-TAAAC
1 GGATATACGAAATATTAAAC
122664 TTTGGGATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (20 bp):
GGATATACGAAATATTAAAC
Found at i:125480 original size:17 final size:18
Alignment explanation
Indices: 125460--125494 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
125450 TTTGGGGTTG
125460 TTTT-AGTTTTTCAAAAT
1 TTTTGAGTTTTTCAAAAT
*
125477 TTTTGAGTTTTTTAAAAT
1 TTTTGAGTTTTTCAAAAT
125495 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
TTTTGAGTTTTTCAAAAT
Found at i:127125 original size:45 final size:46
Alignment explanation
Indices: 127049--127158 Score: 107
Period size: 45 Copynumber: 2.4 Consensus size: 46
127039 AAGCGTTACT
* * * *
127049 TAAACCATTAATTTTCTA-CTAGAAATATTAATACTGAACGCTATC
1 TAAAACATTATTTTTCTACCGAGAAATATTAATACTGAACGCTAAC
* * **
127094 TAAAACATTATTTTTCTACCGA-AAATGTTAATATTGTGCGCTAAC
1 TAAAACATTATTTTTCTACCGAGAAATATTAATACTGAACGCTAAC
** *
127139 TAAAATGTTATTTTTTTACC
1 TAAAACATTATTTTTCTACC
127159 TATTTTTAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 51 0.96
46 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (46 bp):
TAAAACATTATTTTTCTACCGAGAAATATTAATACTGAACGCTAAC
Found at i:127844 original size:3 final size:3
Alignment explanation
Indices: 127838--127863 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
127828 ATAATAATAA
127838 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
127864 ATGAGACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:131890 original size:60 final size:61
Alignment explanation
Indices: 131808--131921 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 61
131798 GTCTCACGAC
*
131808 TAACTATAGGATGTTGTCTTGTTAAATC-CAT-CAACTATTAAAAGTTATAAAATGACCTCA
1 TAACTATAGGATGTTGTCTTGTTAAATCTC-TCCAACTATTAAAAGTTACAAAATGACCTCA
* * *
131868 TAACTATAAGG-TGTTG-CTTTGTTGAGTCTCTCCGACTATTAAAAGTTACAAAAT
1 TAACTAT-AGGATGTTGTC-TTGTTAAATCTCTCCAACTATTAAAAGTTACAAAAT
131922 AGTCACCGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
59 1 0.02
60 21 0.46
61 24 0.52
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (61 bp):
TAACTATAGGATGTTGTCTTGTTAAATCTCTCCAACTATTAAAAGTTACAAAATGACCTCA
Found at i:132153 original size:59 final size:59
Alignment explanation
Indices: 132086--132221 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 59
132076 GAAGTCATGT
* * * * *
132086 GACCATTTTTTAATTTTTAAT-AGTCGAGGGACTCAACAAAGCAACGTCTTATAGTCGGG
1 GACCATTTTGTAACTTTTAATCA-TCAAGAGACTCAACAAAGCAACATCTTATAGTCGGG
** *
132145 GACCATTTTGTAACTTTTAATCATCAAGAGACTCAACAAAGTTACATCTTATAGTTGGGG
1 GACCATTTTGTAACTTTTAATCATCAAGAGACTCAACAAAGCAACATCTTATAG-TCGGG
*
132205 GATCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
132222 ACCATTAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
59 45 0.69
60 17 0.26
61 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (59 bp):
GACCATTTTGTAACTTTTAATCATCAAGAGACTCAACAAAGCAACATCTTATAGTCGGG
Found at i:132304 original size:34 final size:36
Alignment explanation
Indices: 132264--132341 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 36
132254 TTTACCTTTC
132264 ATATTTTATT-TAAAATTTACATTTAAAATTATAAT
1 ATATTTTATTATAAAATTTACATTTAAAATTATAAT
* * **
132299 A-ATTTTATTATAGATTTTTTATTTAAAATTATAAT
1 ATATTTTATTATAAAATTTACATTTAAAATTATAAT
132334 ATATTTTA
1 ATATTTTA
132342 CGACTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 8 0.22
35 23 0.62
36 6 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (36 bp):
ATATTTTATTATAAAATTTACATTTAAAATTATAAT
Found at i:139450 original size:324 final size:324
Alignment explanation
Indices: 138861--139511 Score: 1275
Period size: 324 Copynumber: 2.0 Consensus size: 324
138851 AATCATACAA
138861 AGGAAATTAAGAGTCTTAACAACATGAGTTCTAGTTCTCCTAGGCTATCCACATGGCTCTAACGG
1 AGGAAATTAAGAGTCTTAACAACATGAGTTCTAGTTCTCCTAGGCTATCCACATGGCTCTAACGG
*
138926 GGTAGGTTTACTAAATTCTCTAGATGAGGTTTGACTCTAAGGAGGTTCCCAAGCCATCTTTACAA
66 GGTAGGTTTACTAAATTCTCTAGATGAGGTTTGACTCTAAGGAGGTTCCCAAGCCATATTTACAA
138991 CATGCTATGGTTAACTCCGATTATGGCCCATTATAGACTTGCGAATCAGATTCTGCTTAGGGGAT
131 CATGCTATGGTTAACTCCGATTATGGCCCATTATAGACTTGCGAATCAGATTCTGCTTAGGGGAT
139056 CACACAACTAAAAGTGTATCTTGAAACTGATATCCAGATAGGCAACTTAGGGTGCTATCCAAAGG
196 CACACAACTAAAAGTGTATCTTGAAACTGATATCCAGATAGGCAACTTAGGGTGCTATCCAAAGG
*
139121 TAATTTGTCAGACCCACACAAGGAAGCCCAATTCTCCTCATTAGGTGTGATGTTTCCCCTACTT
261 TAATTTGTCAGACCCACACAAGGAAGCCCAATTCTCCTCATTAGGTGTGATATTTCCCCTACTT
139185 AGGAAATTAAGAGTCTTAACAACATGAGTTCTAGTTCTCCTAGGCTATCCACATGGCTCTAACGG
1 AGGAAATTAAGAGTCTTAACAACATGAGTTCTAGTTCTCCTAGGCTATCCACATGGCTCTAACGG
139250 GGTAGGTTTACTAAATTCTCTAGATGAGGTTTGACTCTAAGGAGGTTCCCAAGCCATATTTACAA
66 GGTAGGTTTACTAAATTCTCTAGATGAGGTTTGACTCTAAGGAGGTTCCCAAGCCATATTTACAA
*
139315 CATGCTATGGTTAACTCTGATTATGGCCCATTATAGACTTGCGAATCAGATTCTGCTTAGGGGAT
131 CATGCTATGGTTAACTCCGATTATGGCCCATTATAGACTTGCGAATCAGATTCTGCTTAGGGGAT
139380 CACACAACTAAAAGTGTATCTTGAAACTGATATCCAGATAGGCAACTTAGGGTGCTATCCAAAGG
196 CACACAACTAAAAGTGTATCTTGAAACTGATATCCAGATAGGCAACTTAGGGTGCTATCCAAAGG
139445 TAATTTGTCAGACCCACACAAGGAAGCCCAATTCTCCTCATTAGGTGTGATATTTCCCCTACTT
261 TAATTTGTCAGACCCACACAAGGAAGCCCAATTCTCCTCATTAGGTGTGATATTTCCCCTACTT
139509 AGG
1 AGG
139512 TAAACCGGGA
Statistics
Matches: 324, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
324 324 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (324 bp):
AGGAAATTAAGAGTCTTAACAACATGAGTTCTAGTTCTCCTAGGCTATCCACATGGCTCTAACGG
GGTAGGTTTACTAAATTCTCTAGATGAGGTTTGACTCTAAGGAGGTTCCCAAGCCATATTTACAA
CATGCTATGGTTAACTCCGATTATGGCCCATTATAGACTTGCGAATCAGATTCTGCTTAGGGGAT
CACACAACTAAAAGTGTATCTTGAAACTGATATCCAGATAGGCAACTTAGGGTGCTATCCAAAGG
TAATTTGTCAGACCCACACAAGGAAGCCCAATTCTCCTCATTAGGTGTGATATTTCCCCTACTT
Found at i:141263 original size:511 final size:511
Alignment explanation
Indices: 140302--141329 Score: 2038
Period size: 511 Copynumber: 2.0 Consensus size: 511
140292 ATTAATTCCC
140302 TAATAAGTGAACATTGCCTTAGAATTAAAAATAAAATGCAATCAAACAAATTTTATTTATCCTAA
1 TAATAAGTGAACATTGCCTTAGAATTAAAAATAAAATGCAATCAAACAAATTTTATTTATCCTAA
140367 TTAAACTAAGAGTAAATTAAAGCTCTTTCTAGCTTAAAGTGTCGAATTATGAAAATTAAAGAACA
66 TTAAACTAAGAGTAAATTAAAGCTCTTTCTAGCTTAAAGTGTCGAATTATGAAAATTAAAGAACA
140432 TAAAAGCACAAACCTAGAAGTGTAGGTTCTAATATTAATCCTATTTTATTTTTAAACCAATTATT
131 TAAAAGCACAAACCTAGAAGTGTAGGTTCTAATATTAATCCTATTTTATTTTTAAACCAATTATT
140497 GAATCGAATAACCGAGATGGTCCCTTGAGCATTATGCGAGGGCCGACTCGAATTATTCCCTAAAT
196 GAATCGAATAACCGAGATGGTCCCTTGAGCATTATGCGAGGGCCGACTCGAATTATTCCCTAAAT
140562 TAAAAGGACTATATTGAAATTAGTGAAAAGTGGAGGCCCTATTTAACATATTTAATTATGTTAAT
261 TAAAAGGACTATATTGAAATTAGTGAAAAGTGGAGGCCCTATTTAACATATTTAATTATGTTAAT
140627 ATTAAAGCCCTAATCGAAGTTTGGGGACTAAAAAGGTCAAGATCTAAAATATCGAGTTCTAAAAG
326 ATTAAAGCCCTAATCGAAGTTTGGGGACTAAAAAGGTCAAGATCTAAAATATCGAGTTCTAAAAG
*
140692 ACTAATTAAATAGTGTCATCCTAATTTCTAAGTTTGATTTCGAAAGTTAACCTAATCTAAAAAAT
391 ACTAATTAAATAATGTCATCCTAATTTCTAAGTTTGATTTCGAAAGTTAACCTAATCTAAAAAAT
140757 AAATCTAAGGATTTAAACTATGAGATAATCAAAACAATTAATAAACCTAATTAGAA
456 AAATCTAAGGATTTAAACTATGAGATAATCAAAACAATTAATAAACCTAATTAGAA
140813 TAATAAGTGAACATTGCCTTAGAATTAAAAATAAAATGCAATCAAACAAATTTTATTTATCCTAA
1 TAATAAGTGAACATTGCCTTAGAATTAAAAATAAAATGCAATCAAACAAATTTTATTTATCCTAA
140878 TTAAACTAAGAGTAAATTAAAGCTCTTTCTAGCTTAAAGTGTCGAATTATGAAAATTAAAGAACA
66 TTAAACTAAGAGTAAATTAAAGCTCTTTCTAGCTTAAAGTGTCGAATTATGAAAATTAAAGAACA
140943 TAAAAGCACAAACCTAGAAGTGTAGGTTCTAATATTAATCCTATTTTATTTTTAAACCAATTATT
131 TAAAAGCACAAACCTAGAAGTGTAGGTTCTAATATTAATCCTATTTTATTTTTAAACCAATTATT
141008 GAATCGAATAACCGAGATGGTCCCTTGAGCATTATGCGAGGGCCGACTCGAATTATTCCCTAAAT
196 GAATCGAATAACCGAGATGGTCCCTTGAGCATTATGCGAGGGCCGACTCGAATTATTCCCTAAAT
141073 TAAAAGGACTATATTGAAATTAGTGAAAAGTGGAGGCCCTATTTAACATATTTAATTATGTTAAT
261 TAAAAGGACTATATTGAAATTAGTGAAAAGTGGAGGCCCTATTTAACATATTTAATTATGTTAAT
*
141138 ATTAAAGTCCTAATCGAAGTTTGGGGACTAAAAAGGTCAAGATCTAAAATATCGAGTTCTAAAAG
326 ATTAAAGCCCTAATCGAAGTTTGGGGACTAAAAAGGTCAAGATCTAAAATATCGAGTTCTAAAAG
141203 ACTAATTAAATAATGTCATCCTAATTTCTAAGTTTGATTTCGAAAGTTAACCTAATCTAAAAAAT
391 ACTAATTAAATAATGTCATCCTAATTTCTAAGTTTGATTTCGAAAGTTAACCTAATCTAAAAAAT
141268 AAATCTAAGGATTTAAACTATGAGATAATCAAAACAATTAATAAACCTAATTAGAA
456 AAATCTAAGGATTTAAACTATGAGATAATCAAAACAATTAATAAACCTAATTAGAA
141324 TAATAA
1 TAATAA
141330 ATAATATAAA
Statistics
Matches: 515, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
511 515 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (511 bp):
TAATAAGTGAACATTGCCTTAGAATTAAAAATAAAATGCAATCAAACAAATTTTATTTATCCTAA
TTAAACTAAGAGTAAATTAAAGCTCTTTCTAGCTTAAAGTGTCGAATTATGAAAATTAAAGAACA
TAAAAGCACAAACCTAGAAGTGTAGGTTCTAATATTAATCCTATTTTATTTTTAAACCAATTATT
GAATCGAATAACCGAGATGGTCCCTTGAGCATTATGCGAGGGCCGACTCGAATTATTCCCTAAAT
TAAAAGGACTATATTGAAATTAGTGAAAAGTGGAGGCCCTATTTAACATATTTAATTATGTTAAT
ATTAAAGCCCTAATCGAAGTTTGGGGACTAAAAAGGTCAAGATCTAAAATATCGAGTTCTAAAAG
ACTAATTAAATAATGTCATCCTAATTTCTAAGTTTGATTTCGAAAGTTAACCTAATCTAAAAAAT
AAATCTAAGGATTTAAACTATGAGATAATCAAAACAATTAATAAACCTAATTAGAA
Found at i:144349 original size:141 final size:141
Alignment explanation
Indices: 144095--144376 Score: 564
Period size: 141 Copynumber: 2.0 Consensus size: 141
144085 CCAAAAAATT
144095 ATTTGTTAGCAGGGATGTAGAGTTTCATGAGCATATTCTCCCTTTTCATTTTCCTACAAATTCTT
1 ATTTGTTAGCAGGGATGTAGAGTTTCATGAGCATATTCTCCCTTTTCATTTTCCTACAAATTCTT
144160 CTTCAGTTTTTCCCTTATTTTCCTACTGTCCCATATTCTGAATTTCTGGTTTTATCTGCTCCTCA
66 CTTCAGTTTTTCCCTTATTTTCCTACTGTCCCATATTCTGAATTTCTGGTTTTATCTGCTCCTCA
144225 TTCTACTCCTA
131 TTCTACTCCTA
144236 ATTTGTTAGCAGGGATGTAGAGTTTCATGAGCATATTCTCCCTTTTCATTTTCCTACAAATTCTT
1 ATTTGTTAGCAGGGATGTAGAGTTTCATGAGCATATTCTCCCTTTTCATTTTCCTACAAATTCTT
144301 CTTCAGTTTTTCCCTTATTTTCCTACTGTCCCATATTCTGAATTTCTGGTTTTATCTGCTCCTCA
66 CTTCAGTTTTTCCCTTATTTTCCTACTGTCCCATATTCTGAATTTCTGGTTTTATCTGCTCCTCA
144366 TTCTACTCCTA
131 TTCTACTCCTA
144377 TTTTAGATCC
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.18, C:0.24, G:0.11, T:0.46
Consensus pattern (141 bp):
ATTTGTTAGCAGGGATGTAGAGTTTCATGAGCATATTCTCCCTTTTCATTTTCCTACAAATTCTT
CTTCAGTTTTTCCCTTATTTTCCTACTGTCCCATATTCTGAATTTCTGGTTTTATCTGCTCCTCA
TTCTACTCCTA
Found at i:153678 original size:24 final size:24
Alignment explanation
Indices: 153651--153700 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
153641 TTATTAATTT
*
153651 TAGTCCCATGTTTTAGGCTCAATA
1 TAGTCCCATGTTCTAGGCTCAATA
* * *
153675 TAGTCTCGTGTTCTATGCTCAATA
1 TAGTCCCATGTTCTAGGCTCAATA
153699 TA
1 TA
153701 TGTATGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (24 bp):
TAGTCCCATGTTCTAGGCTCAATA
Found at i:164069 original size:3 final size:3
Alignment explanation
Indices: 164063--164109 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
164053 ATTAATTATT
* *
164063 TAA TAA TAA TAA TAA TAA TAA GAA TAA TAA TAA TTA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
164110 GAATTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:164380 original size:82 final size:82
Alignment explanation
Indices: 164273--164607 Score: 412
Period size: 82 Copynumber: 4.1 Consensus size: 82
164263 TCAATAGCAA
* *
164273 ATCAGACTTGACATGTTCCTCTTTTTTGGTTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
1 ATCAGACTTGATATGTTCCTCTTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
164338 CTATTCTTTCAGGGGAG
66 CTATTCTTTCAGGGGAG
* * * * * *
164355 ATCAAACTTGATTTGTTCCTCTTTTTCGAGTAGTCAGATCAATTTTGGAAGATGGGTATGCTCCT
1 ATCAGACTTGATATGTTCCTCTTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
* *
164420 CTCTTCTTTCAAGGGAG
66 CTATTCTTTCAGGGGAG
* *
164437 ATCAGACTTGATATGTTCCTATTTTTTAGGGTAGTCAA-ATCAATTTTGGAAGATGGGT-T--T-
1 ATCAGACTTGATATGTTCCTCTTTTTT-GGGTAGT-AAGATCAATTTTGGAAGACGGGTATGCTC
* *
164497 -GCTATTATTTCAGGGGAG
64 CTCTATTCTTTCAGGGGAG
** * * *
164515 ATCAGACTTGACCTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGAGTCTGCTCCT
1 ATCAGACTTGATATGTTCCTCTTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
* * *
164580 CTATACTTTTAGGGGAC
66 CTATTCTTTCAGGGGAG
164597 ATCAGACTTGA
1 ATCAGACTTGA
164608 GGATTAATTT
Statistics
Matches: 214, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
76 1 0.00
77 25 0.12
78 39 0.18
80 2 0.01
82 120 0.56
83 26 0.12
84 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (82 bp):
ATCAGACTTGATATGTTCCTCTTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
CTATTCTTTCAGGGGAG
Found at i:164534 original size:160 final size:162
Alignment explanation
Indices: 164273--164607 Score: 435
Period size: 160 Copynumber: 2.1 Consensus size: 162
164263 TCAATAGCAA
* * *
164273 ATCAGACTTGACATGTTCCTCTTTTTTGGTTAGTAAGATCAATTTTGGAAGACGGGTATGCTCCT
1 ATCAGACTTGACATGTTCCTATTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTAT-CT-CG
* **
164338 CTATTCTTTCAGGGGAGATCAAACTTGATTTGTTCCTCTTTTTCGAGTAGTCAGATCAATTTTGG
64 CTATTATTTCAGGGGAGATCAAACTTGACCTGTTCCTCTTTTTCGAGTAGTCAGATCAATTTTGG
* * * * *
164403 AAGATGGGTATGCTCCTCTCTTCTTTCAAGGGAG
129 AAGACGAGTATGCTCCTCTATACTTTCAAGGGAC
* *
164437 ATCAGACTTGATATGTTCCTATTTTTTAGGGTAGTCAA-ATCAATTTTGGAAGATGGGT-T-T-G
1 ATCAGACTTGACATGTTCCTATTTTTT-GGGTAGT-AAGATCAATTTTGGAAGACGGGTATCTCG
* * *
164498 CTATTATTTCAGGGGAGATCAGACTTGACCTGTTCCTCTTTTTTGGGTAGTCAGATCAATTTTGG
64 CTATTATTTCAGGGGAGATCAAACTTGACCTGTTCCTCTTTTTCGAGTAGTCAGATCAATTTTGG
* * *
164563 AAGACGAGTCTGCTCCTCTATACTTTTAGGGGAC
129 AAGACGAGTATGCTCCTCTATACTTTCAAGGGAC
164597 ATCAGACTTGA
1 ATCAGACTTGA
164608 GGATTAATTT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
160 96 0.64
162 1 0.01
164 26 0.17
165 25 0.17
166 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (162 bp):
ATCAGACTTGACATGTTCCTATTTTTTGGGTAGTAAGATCAATTTTGGAAGACGGGTATCTCGCT
ATTATTTCAGGGGAGATCAAACTTGACCTGTTCCTCTTTTTCGAGTAGTCAGATCAATTTTGGAA
GACGAGTATGCTCCTCTATACTTTCAAGGGAC
Found at i:164927 original size:27 final size:27
Alignment explanation
Indices: 164880--164934 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
164870 CGAGGGATTA
** *
164880 AGGAATAACAATGATTTACTTCTCTTC
1 AGGAATAACAAAAATTGACTTCTCTTC
164907 AGGAATAACAAAAATTGACTTCTCTTC
1 AGGAATAACAAAAATTGACTTCTCTTC
164934 A
1 A
164935 CGAGGAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AGGAATAACAAAAATTGACTTCTCTTC
Found at i:164967 original size:56 final size:56
Alignment explanation
Indices: 164902--165058 Score: 181
Period size: 56 Copynumber: 2.8 Consensus size: 56
164892 GATTTACTTC
** *
164902 TCTTCAGGAATAACAAAAATTGACTTCTCTTCACGAGGAAGTTGACAATTGATTCA
1 TCTTCAGGAATAACAAAAATTGACTTCTCTTCACGAGGAAGTCAACAATTGACTCA
* * **
164958 TCTTCAGGAATAA-AAAATATTGATTTCTCTTCATGAGGAAGTCAAGGATTGACTCA
1 TCTTCAGGAATAACAAAA-ATTGACTTCTCTTCACGAGGAAGTCAACAATTGACTCA
** ** * *
165014 TCTTCTCGAATAACAAAGGTTGACTTATCTTCACAAGGAAGTCAA
1 TCTTCAGGAATAACAAAAATTGACTTCTCTTCACGAGGAAGTCAA
165059 AGATTTGTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
55 4 0.05
56 77 0.92
57 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (56 bp):
TCTTCAGGAATAACAAAAATTGACTTCTCTTCACGAGGAAGTCAACAATTGACTCA
Found at i:165017 original size:29 final size:29
Alignment explanation
Indices: 164985--165086 Score: 70
Period size: 29 Copynumber: 3.6 Consensus size: 29
164975 TATTGATTTC
164985 TCTTCATGAGGAAGTCAAGGATTGACTCA
1 TCTTCATGAGGAAGTCAAGGATTGACTCA
** *
165014 TCTTC-TCGAATAA--CAAAGG-TTGACTTA
1 TCTTCAT-GAGGAAGTC-AAGGATTGACTCA
** * * *
165041 TCTTCACAAGGAAGTCAAAGATTTG-TTCC
1 TCTTCATGAGGAAGTCAAGGA-TTGACTCA
165070 TCTTCATGAGGAAGTCA
1 TCTTCATGAGGAAGTCA
165087 GGAATAACAA
Statistics
Matches: 53, Mismatches: 13, Indels: 14
0.66 0.16 0.17
Matches are distributed among these distances:
27 16 0.30
28 8 0.15
29 26 0.49
30 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (29 bp):
TCTTCATGAGGAAGTCAAGGATTGACTCA
Found at i:174571 original size:3 final size:3
Alignment explanation
Indices: 174565--174599 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
174555 TATTAATTAT
174565 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T
174600 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:176573 original size:438 final size:437
Alignment explanation
Indices: 175758--176798 Score: 1767
Period size: 438 Copynumber: 2.4 Consensus size: 437
175748 AGTCCTTGTG
* * * * *
175758 GCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGTTTTTTTTTCAAAAACAAGAACATTTT
1 GCCATCCATAAGACTTTTGGGTAGGATGTTTTCACATG-TTTTTTTTCAAAAACGAGAAAAGTTT
175823 CTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATT
65 CTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATT
* * *
175888 TCCAAAATTCGTAAGTCCTTCAAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG
130 TCCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTATTTCGAGCATGATGCTTAAATCCTTCGG
* *
175953 GTAATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGGCCATCAATAAGACCTTCAGGCAG
195 GTAATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGCCCATCAATAAGACCTTCAGGAAG
* *
176018 GATGTTTTCACATGTCTTTTGAAAAAAGAGAAATGTTTCTCATTTAAATCTAAAAATTGAAATTT
260 GATGTTTTCACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTT
176083 TTGAAAAGTGAGAAAACGTTTTCCTAAACTTCTTACCTAGTAAACTATTTCCAAAATTGGTGAGT
325 TTGAAAAGTGAGAAAACGTTTTCCTAAACTTCTTACCTAGTAAACTATTTCCAAAATTGGTGAGT
* * *
176148 CCTTCGGGCCATCAGCAAGTCTTTCAAGTAAGATAATAAGTTCTTCGA
390 CCTTCGGGCCATCAACAAGTCTTTCAAGCAAGATAATAAGTCCTTCGA
*
176196 GCCATCCATAAGACTTTTGGGTAGAATGTTTTCACATGCTTTTTTTTCAAAAACGAGAAAAGTTT
1 GCCATCCATAAGACTTTTGGGTAGGATGTTTTCACATG-TTTTTTTTCAAAAACGAGAAAAGTTT
* *
176261 CTCATTAAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAACGTTTCTTACCTAGTAAACTATT
65 CTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATT
* *
176326 TCCAAAATTGGTAAATCCTTCGAGCCATCAATAAGTATTTCGAGCATGATGCTTGAATCCTTCGG
130 TCCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTATTTCGAGCATGATGCTTAAATCCTTCGG
* * * * *
176391 GTCATTTGTAAGCCTTTCGAGCAAGATTATAAGTCCTTTGGCCCATCCATGAGACCTTCAGGAAG
195 GTAATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGCCCATCAATAAGACCTTCAGGAAG
176456 GATGTTTTCACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTT
260 GATGTTTTCACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTT
* * * *
176521 TTGAAAAGTGGGATAACGTTTTCCTAAATTTCTTACCTAGTAAACTATTTCCAAAATTTGTGAGT
325 TTGAAAAGTGAGAAAACGTTTTCCTAAACTTCTTACCTAGTAAACTATTTCCAAAATTGGTGAGT
*
176586 CCTTCGGGCCATCAACAAGTCTTTCAAGCAAGATAATAAGTCCTTCGG
390 CCTTCGGGCCATCAACAAGTCTTTCAAGCAAGATAATAAGTCCTTCGA
* *
176634 GCCATCCATAAGAATTTTGGGCAGGATGTTTTCACATGTTTTTTTTCAAAAACGAGAAAAGTTTC
1 GCCATCCATAAGACTTTTGGGTAGGATGTTTTCACATGTTTTTTTTCAAAAACGAGAAAAGTTTC
*
176699 TCATTTAAATCTAAAAATTGAAATTTTTGAAAAATAAGAAAGGTTTCTTACCTAGTAAACTATTT
66 TCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATTT
176764 CCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGT
131 CCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGT
176799 CTTTGGAAAT
Statistics
Matches: 565, Mismatches: 38, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
437 123 0.22
438 442 0.78
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (437 bp):
GCCATCCATAAGACTTTTGGGTAGGATGTTTTCACATGTTTTTTTTCAAAAACGAGAAAAGTTTC
TCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAACTATTT
CCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTATTTCGAGCATGATGCTTAAATCCTTCGGG
TAATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGCCCATCAATAAGACCTTCAGGAAGG
ATGTTTTCACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTTT
TGAAAAGTGAGAAAACGTTTTCCTAAACTTCTTACCTAGTAAACTATTTCCAAAATTGGTGAGTC
CTTCGGGCCATCAACAAGTCTTTCAAGCAAGATAATAAGTCCTTCGA
Found at i:176801 original size:193 final size:192
Alignment explanation
Indices: 176399--176802 Score: 476
Period size: 202 Copynumber: 2.0 Consensus size: 192
176389 GGGTCATTTG
* * * * * *
176399 TAAGCCTTTCGAGCAAGATTATAAGTCCTTTGGCCCATCCATGAGACCTTCAGGAAGGATGTTTT
1 TAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGCCCATCCATAAGAACTTCAGGAAGGATGTTTT
176464 CACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAG
66 CACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAA-
* * *
176529 TGGGATAACGTTTTCCTAAATTTCTTACCTAGTAAACTATTTCCAAAATTTGTGAGTCCTTCGGG
130 ---GATAACG------TAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAG
176594 CCATCAA
186 CCATCAA
* * * ** *
176601 CAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGGCCATCCATAAGAATTTTGGGCAGGATGTTTT
1 TAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGCCCATCCATAAGAACTTCAGGAAGGATGTTTT
* *
176666 CACATGTTTTTTTTC-AAAAACGAGAAA-AGTTTCTCATTTAAATCTAAAAATTGAAATTTTTGA
66 CACATG---TCTTTCGAAAAAAGAGAAATA-TTTCTCATTTAAATCTAAAAATTGAAATTTTTGA
176729 AAA-ATAA-G-AAAGGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGCCAT
127 AAAGATAACGTAAA--TTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGCCAT
176791 CAA
190 CAA
176794 TAAGTCTTT
1 TAAGTCTTT
176803 GGAAATGACT
Statistics
Matches: 178, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
191 3 0.02
193 57 0.32
198 1 0.01
199 4 0.02
202 59 0.33
203 1 0.01
204 48 0.27
205 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (192 bp):
TAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGCCCATCCATAAGAACTTCAGGAAGGATGTTTT
CACATGTCTTTCGAAAAAAGAGAAATATTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAG
ATAACGTAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGCCATCAA
Found at i:178510 original size:41 final size:41
Alignment explanation
Indices: 178420--178511 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
178410 CCAAAATTTG
* * * *
178420 TAAGTCCTTCAAGCATCAGTATGTCTTTCGAGCATGATGCT
1 TAAGTCCTTCAAGCATCAGTAAGCCTTTCGAGCAAGATGCA
* * * *
178461 TAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATG-A
1 TAAGTCCTTCAAG-CATCAGTAAGCCTTTCGAGCAAGATGCA
178502 TAAGTCCTTC
1 TAAGTCCTTC
178512 GGGCCATCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 20 0.49
42 21 0.51
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (41 bp):
TAAGTCCTTCAAGCATCAGTAAGCCTTTCGAGCAAGATGCA
Found at i:178626 original size:234 final size:234
Alignment explanation
Indices: 178208--178852 Score: 928
Period size: 235 Copynumber: 2.8 Consensus size: 234
178198 GGATCATCTG
* * *
178208 TAAGTTTTTCGAGCATGATGCTTAAATCCTTCGGGTAATTTGTAAGTCTTTTGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTGTAAGACTTTTGAGCAAGATGATA
* *
178273 AGT-ATTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTT--CATGTGTCTTTCAAAAAATGA
66 AGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATATGTCTTTCAAAAAAT-A
*
178335 GAAACGTTTCTCATTTAAATCTGAAAATTGATAA-TTTTGAAAAGTAAGAAAGGTTTCTTACCTA
130 GAAACGTTTCTCATTTAAATCTAAAAATTGA-AATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
* *
178399 GTAAACTATTTCCAAAATTTGTAAGTCCTTCAAG-CATCAG
194 GTAAACTATTTCCAAAATTGGTAAGTCCTTCAAGCCATCAA
* * * *
178439 TATGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTGTAAGACTTTTGAGCAAGATGATA
* * * *
178504 AGTCCTTCGGGCCATCCATAAGACCTTCCGGCAGGATGTTTTCACATATTTTTTTTCAAAAACTA
66 AGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATA-TGTCTTTCAAAAAATA
* *
178569 G-AACAGATTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTT
130 GAAAC-GTTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
*
178633 GTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGCCATCAA
194 GTAAACTATTTCCAAAATTGGTAAGTCCTTCAAGCCATCAA
* *
178674 TAAGTCTTTCGATCATGATGCTTAAATCCTTCGGGTAATCTGTAAGACTTTCGAGCAAGATGATA
1 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTGTAAGACTTTTGAGCAAGATGATA
* * * * *
178739 AGTCCTTTGGTCCATCTATGAGACCTTCAGGCAGGATGTTTTCAC--ATGTCTTTCGAAAAAAGA
66 AGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATATGTCTTTC-AAAAAATA
* * *
178802 GAAATGTTTCTCATTTAAATCTAAAAAATGAAATTTTTGAAAAGTGAGAAA
130 GAAACGTTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAA
178853 ATGTTTTCCT
Statistics
Matches: 368, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
231 62 0.17
232 42 0.11
233 56 0.15
234 92 0.25
235 116 0.32
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (234 bp):
TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTGTAAGACTTTTGAGCAAGATGATA
AGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATATGTCTTTCAAAAAATAG
AAACGTTTCTCATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGT
AAACTATTTCCAAAATTGGTAAGTCCTTCAAGCCATCAA
Found at i:179441 original size:134 final size:134
Alignment explanation
Indices: 179125--179638 Score: 586
Period size: 134 Copynumber: 3.8 Consensus size: 134
179115 GAGAAAGTGG
* * * * * *
179125 AACATATCCCTTTTTTTTC-AGATTTGATCTTCCTTAAGGAATAATGGAACAAGTCTGTCTCGAT
1 AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGAT
* * * * *
179189 TCAATCTTCCTTGAAGAATAGTAGAATGAATTAACATTTCTAGATATGATTTTCCCTCAAGAAGC
66 TCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCATATATGA-TTTCCCTCAAGAAGC
* *
179254 AGTGG
130 AGCGA
* * * * * *
179259 AACATATCCCTCTTTTTTCCAGATTTGATATTCCCTTG-GAAACAGTGGAACAAGTCTGCCTCAA
1 AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCC-TGAGGAATAGTGGAACAAGTCTGCCTCGA
* * * * * *
179323 TTTAATCATCCCTGAAGAATAGTGGAATAAATCATCATTTCCATATATGATTTCCCTCATGATGC
65 TTCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCATATATGATTTCCCTCAAGAAGC
179388 AGCGA
130 AGCGA
* *
179393 AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTTTGTCTCGAT
1 AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGAT
* * * **
179458 TCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAGGTCTGATTATTT-TGTCAAGAA
66 TCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCA--TAT-ATGATTTCCCTCAAGAA
*
179522 GAAGCGA
128 GCAGCGA
* * *
179529 AACAAATCCCTTTTTTTTCTAGATTTGATCTTCCTTGAGGAATATTGGAACAAGTCTGCCTCGAT
1 AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGAT
* * * *
179594 TCAATCTT-CCTCAAAGAACATTGGAATGATTCAACATTTCCATAT
66 TCAATCTTCCCT-GAAGAATAGTGGAATGAATCAACATTTCCATAT
179639 CTCTTTTCAG
Statistics
Matches: 322, Mismatches: 51, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
133 2 0.01
134 127 0.39
135 78 0.24
136 109 0.34
137 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (134 bp):
AACAAATCCCTCTTTTTTCTAGATTTGATCTTCCCTGAGGAATAGTGGAACAAGTCTGCCTCGAT
TCAATCTTCCCTGAAGAATAGTGGAATGAATCAACATTTCCATATATGATTTCCCTCAAGAAGCA
GCGA
Found at i:181215 original size:24 final size:24
Alignment explanation
Indices: 181178--181229 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
181168 ACTTATTAAT
*
181178 TATAGTCCCATGTTTTAGGTTCAA
1 TATAGTCCCATGTTTTAGGCTCAA
* * *
181202 TATAGTCTCGTGTTTTATGCTCAA
1 TATAGTCCCATGTTTTAGGCTCAA
181226 TATA
1 TATA
181230 TATATGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (24 bp):
TATAGTCCCATGTTTTAGGCTCAA
Found at i:181373 original size:2 final size:2
Alignment explanation
Indices: 181366--181398 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
181356 ATGTTGTTTC
181366 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
181399 ATGCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:182232 original size:131 final size:131
Alignment explanation
Indices: 181992--182276 Score: 365
Period size: 131 Copynumber: 2.2 Consensus size: 131
181982 ATCGATATTG
* * *
181992 AGAATAGTAATATCTCTTCATTTTGATTGAAGTAATAAATGGCTGCTTTAAGGCATGAGAGGTCA
1 AGAATAGTAATATCTCTTCATTTCGATTGAAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCA
* * * * * *
182057 TTTGTTCTCGAATGGAAATAATTTGATATTACCATTTTCTCTCGAA-TCAATATTGATTTTTAAG
66 TTTATGCTAGAATGGAAATAATTAGATATTACCATTTTCACTCGAACT-AATATTGAATTTTAAG
182121 AC
130 AC
* * * * *
182123 GGAATAGTGACATCTCTTCATTTCGATTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTCA
1 AGAATAGTAATATCTCTTCATTTCGATTGAAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCA
* * * * * *
182188 TTTATGCTAGATTTGAAATCATTAGATATTATCGTTTTCACTCGAACTGATATTGAATTTTAAGA
66 TTTATGCTAGAATGGAAATAATTAGATATTACCATTTTCACTCGAACTAATATTGAATTTTAAGA
182253 C
131 C
*
182254 AAAATAGTAATATCTCTTCATTT
1 AGAATAGTAATATCTCTTCATTT
182277 TCGGTGATGT
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
131 128 0.99
132 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (131 bp):
AGAATAGTAATATCTCTTCATTTCGATTGAAGCAATAAATGACTGCTTTAAGGCATGAGAGGTCA
TTTATGCTAGAATGGAAATAATTAGATATTACCATTTTCACTCGAACTAATATTGAATTTTAAGA
C
Found at i:189928 original size:27 final size:27
Alignment explanation
Indices: 189898--189956 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
189888 TTTACGCCGA
189898 TTACTTGTCTACAAGGACATATCATTG
1 TTACTTGTCTACAAGGACATATCATTG
189925 TTACTTGTCTACAAGGACATATCATTG
1 TTACTTGTCTACAAGGACATATCATTG
189952 TTACT
1 TTACT
189957 ATGCTTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (27 bp):
TTACTTGTCTACAAGGACATATCATTG
Found at i:190424 original size:21 final size:21
Alignment explanation
Indices: 190394--190437 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
190384 TAGCATATTT
*
190394 AAAAATAAAACTT-AAAATAA
1 AAAAATAAAACTTGAAAAGAA
190414 AAAAATGAAAACTTGAAAAGAA
1 AAAAAT-AAAACTTGAAAAGAA
190436 AA
1 AA
190438 GAAAAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAAATAAAACTTGAAAAGAA
Found at i:192146 original size:83 final size:83
Alignment explanation
Indices: 192007--192173 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
191997 GTATAAAGTG
192007 AAGTTCAAGAATAGCAACCAACGATCCCAACACATCAATATTAAAATAACTCAATTTCAAATAGT
1 AAGTTCAAGAATAGCAACCAACGATCCCAACACATCAATATTAAAATAACTCAATTTCAAATAGT
192072 CAAACAAGTTAAGGAAAA
66 CAAACAAGTTAAGGAAAA
192090 AAGTTCAAGAATAGCAACCAACGATCCCAACACATCAATATTAAAATAACTCAATTTCAAATAGT
1 AAGTTCAAGAATAGCAACCAACGATCCCAACACATCAATATTAAAATAACTCAATTTCAAATAGT
192155 CAAACAAGTTAAGGAAAA
66 CAAACAAGTTAAGGAAAA
192173 A
1 A
192174 TTTGATATGC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (83 bp):
AAGTTCAAGAATAGCAACCAACGATCCCAACACATCAATATTAAAATAACTCAATTTCAAATAGT
CAAACAAGTTAAGGAAAA
Found at i:194593 original size:12 final size:11
Alignment explanation
Indices: 194574--194610 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
194564 AAGTTTGCTA
194574 AAAATAAAAAG
1 AAAATAAAAAG
194585 AAAATTAAAAAG
1 AAAA-TAAAAAG
*
194597 AAAATAAAACG
1 AAAATAAAAAG
194608 AAA
1 AAA
194611 TGGGTTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:203125 original size:26 final size:26
Alignment explanation
Indices: 203096--203201 Score: 203
Period size: 26 Copynumber: 4.1 Consensus size: 26
203086 GATAGTGTCT
203096 AGCCCAGACTCTGAGAAATGGCTTGA
1 AGCCCAGACTCTGAGAAATGGCTTGA
*
203122 AGCCCAGACTCTGAGAAATTGCTTGA
1 AGCCCAGACTCTGAGAAATGGCTTGA
203148 AGCCCAGACTCTGAGAAATGGCTTGA
1 AGCCCAGACTCTGAGAAATGGCTTGA
203174 AGCCCAGACTCTGAGAAATGGCTTGA
1 AGCCCAGACTCTGAGAAATGGCTTGA
203200 AG
1 AG
203202 TGGACTTTGG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (26 bp):
AGCCCAGACTCTGAGAAATGGCTTGA
Found at i:208435 original size:26 final size:27
Alignment explanation
Indices: 208402--208453 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
208392 GCATATTTGA
*
208402 AAATAAAACTT-AAAATAAAA-AAAAT
1 AAATAAAACTTGAAAAGAAAAGAAAAT
208427 AAATGAAAACTTGAAAAGAAAAGAAAA
1 AAAT-AAAACTTGAAAAGAAAAGAAAA
208454 GAACTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 8 0.35
28 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (27 bp):
AAATAAAACTTGAAAAGAAAAGAAAAT
Found at i:211119 original size:14 final size:14
Alignment explanation
Indices: 211098--211144 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
211088 AAATAAACCG
211098 AACCGAACCGAAAA
1 AACCGAACCGAAAA
*
211112 ACCCGAACCGTTAAAAA
1 AACCGAACCG---AAAA
211129 AACCGAACCGAAAA
1 AACCGAACCGAAAA
211143 AA
1 AA
211145 AACCGGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 15 0.54
17 13 0.46
ACGTcount: A:0.55, C:0.28, G:0.13, T:0.04
Consensus pattern (14 bp):
AACCGAACCGAAAA
Found at i:211134 original size:17 final size:16
Alignment explanation
Indices: 211086--211149 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 16
211076 TTTTATTGAA
211086 AAAAATAAACCGAACCG
1 AAAAA-AAACCGAACCG
*
211103 AACCGAAAAACCCGAACCG
1 AA---AAAAAACCGAACCG
*
211122 TTAAAAAAACCGAACCG
1 -AAAAAAAACCGAACCG
211139 AAAAAAAACCG
1 AAAAAAAACCG
211150 GTTTCGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 10 0.26
17 15 0.38
19 10 0.26
20 4 0.10
ACGTcount: A:0.56, C:0.27, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAAAAAACCGAACCG
Found at i:211856 original size:19 final size:20
Alignment explanation
Indices: 211832--211893 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 20
211822 ATTTTGACCA
211832 TTTAGCCGCCCATGCATTG-
1 TTTAGCCGCCCATGCATTGT
211851 TTTAGCCG-CCA--CACTTGT
1 TTTAGCCGCCCATGCA-TTGT
211869 TTTCAGCCGCCCATGCATTGAT
1 TTT-AGCCGCCCATGCATTG-T
211891 TTT
1 TTT
211894 CAACAATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 6 0.17
19 13 0.36
20 3 0.08
21 3 0.08
22 6 0.17
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.35
Consensus pattern (20 bp):
TTTAGCCGCCCATGCATTGT
Found at i:215945 original size:16 final size:16
Alignment explanation
Indices: 215914--215963 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
215904 CGTATCGCCG
*
215914 ACAAAATTTTACTATTC
1 ACAAAA-TTCACTATTC
215931 ACAAAATTCACTATTC
1 ACAAAATTCACTATTC
**
215947 ATGAAATTCACTATTC
1 ACAAAATTCACTATTC
215963 A
1 A
215964 TGTGAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (16 bp):
ACAAAATTCACTATTC
Found at i:215964 original size:16 final size:16
Alignment explanation
Indices: 215924--215965 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
215914 ACAAAATTTT
**
215924 ACTATTCACAAAATTC
1 ACTATTCATGAAATTC
215940 ACTATTCATGAAATTC
1 ACTATTCATGAAATTC
215956 ACTATTCATG
1 ACTATTCATG
215966 TGAATAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (16 bp):
ACTATTCATGAAATTC
Found at i:218512 original size:16 final size:17
Alignment explanation
Indices: 218477--218512 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
218467 AGGAGGATGA
*
218477 TTCAATTACAACTGTTC
1 TTCAATTACAACTCTTC
218494 TTCAATTAC-ACTCTTC
1 TTCAATTACAACTCTTC
218510 TTC
1 TTC
218513 TCTACCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.44
Consensus pattern (17 bp):
TTCAATTACAACTCTTC
Found at i:221770 original size:43 final size:43
Alignment explanation
Indices: 221503--221914 Score: 354
Period size: 43 Copynumber: 9.6 Consensus size: 43
221493 GCTAAAGTTT
* * * *
221503 GCGGCGTTTTTTCACAAAAAACGCCGTAATAGGTATTGATATTTT
1 GCGGCG-TTTTTCA-TAAAAACGCCGCAATAGGTGTTGATATTTA
* * ** *
221548 GCGGCGTTTGT-ATGACAAACATCGCAATATGTGTTGATATTTA
1 GCGGCGTTTTTCAT-AAAAACGCCGCAATAGGTGTTGATATTTA
* *
221591 GCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
* * * *
221634 GCAGCGTTTTTCAGACAAACGTCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
* * *
221677 GCGGCATTTGTT-ATAAAAATGCCGTAATAGGTGTTGATATTTA
1 GCGGCGTTT-TTCATAAAAACGCCGCAATAGGTGTTGATATTTA
221720 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
** * * * * *
221763 GTAGCGTTTCTAATACAAACGCCGCAATAGGT-TATGATGTTTC
1 GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGT-TGATATTTA
* * * * *
221806 GCGGCATTTTTCGCT-AAAACGCCGCAGTAGTTGTTGATGTTTTA
1 GCGGCGTTTTTC-ATAAAAACGCCGCAATAGGTGTTGAT-ATTTA
* * * * *
221850 -CGGCGTTTTT--TCACAAACGTCGCAATAGGTATTGATGTTTT
1 GCGGCGTTTTTCAT-AAAAACGCCGCAATAGGTGTTGATATTTA
* *
221891 GCGGAGTTTATGC-TAAAAACGCCG
1 GCGGCGTTT-TTCATAAAAACGCCG
221915 GTACATGTCT
Statistics
Matches: 294, Mismatches: 60, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
40 1 0.00
41 3 0.01
42 28 0.10
43 242 0.82
44 14 0.05
45 6 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTA
Found at i:221841 original size:129 final size:129
Alignment explanation
Indices: 221521--221885 Score: 393
Period size: 129 Copynumber: 2.8 Consensus size: 129
221511 TTTTCACAAA
* * * * * ** *
221521 AAACGCCGTAATAGGTATTGATATTTTGCGGCGTTTG-TATGACAAACATCGCAATATGTGTTGA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGTTAT-AAAAACGCCGCAATAGGTGTTGA
* * * *
221585 TATTTAGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGAC
65 TATTTAGCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTCTAAGAC
* * *
221650 AAACGTCGCAATAGGTGTTGATATTTAGCGGCATTTGTTATAAAAATGCCGTAATAGGTGTTGAT
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGTTATAAAAACGCCGCAATAGGTGTTGAT
* *
221715 ATTTAGCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTAGTAGCGTTTCTAATAC
66 ATTTAGCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTCTAAGAC
* * * * *
221779 AAACGCCGCAATAGGT-TATGATGTTTCGCGGCATTT-TTCGCT-AAAACGCCGCAGTAGTTGTT
1 AAACGCCGCAATAGGTGT-TGATATTTAGCGGCATTTGTT--ATAAAAACGCCGCAATAGGTGTT
* * * *
221841 GATGTTTTA-CGGCGTTTTT--TCACAAACGTCGCAATAGGTATTGAT
63 GAT-ATTTAGCGGCGTTTTTCAT-AAAAACGCCGCAATAGGTGTTGAT
221886 GTTTTGCGGA
Statistics
Matches: 201, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
127 1 0.00
128 24 0.12
129 168 0.84
130 8 0.04
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (129 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGTTATAAAAACGCCGCAATAGGTGTTGAT
ATTTAGCGGCGTTTTTCATAAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTCTAAGAC
Found at i:222362 original size:21 final size:21
Alignment explanation
Indices: 222311--222404 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
222301 CTGTTGATAT
222311 GCTGCTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTGTGCTGCC
* *
222332 TCT-TTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTGTGCTGCC
222352 GCTGCTTCTCTCTGTGCTGCC
1 GCTGCTTCTCTCTGTGCTGCC
* * * *
222373 GCTGCTTCTTTCTCTACTTCC
1 GCTGCTTCTCTCTGTGCTGCC
*
222394 GCTGCTGCTCT
1 GCTGCTTCTCT
222405 GGCTGCTTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 18 0.29
21 44 0.71
ACGTcount: A:0.01, C:0.37, G:0.19, T:0.43
Consensus pattern (21 bp):
GCTGCTTCTCTCTGTGCTGCC
Found at i:222413 original size:21 final size:21
Alignment explanation
Indices: 222345--222434 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
222335 TTTCTCTCTG
* *
222345 TGCTGCCGCTGCTTCTCTCTG-
1 TGCTTCCGCTGCTGCTCTC-GC
* * * *
222366 TGCTGCCGCTGCTTCTTTCTC
1 TGCTTCCGCTGCTGCTCTCGC
* *
222387 TACTTCCGCTGCTGCTCTGGC
1 TGCTTCCGCTGCTGCTCTCGC
* * *
222408 TGCTTCTGTTGCTGCTCTCTC
1 TGCTTCCGCTGCTGCTCTCGC
222429 TGCTTC
1 TGCTTC
222435 TCTTGCTTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.01, C:0.37, G:0.21, T:0.41
Consensus pattern (21 bp):
TGCTTCCGCTGCTGCTCTCGC
Found at i:222435 original size:21 final size:21
Alignment explanation
Indices: 222396--222441 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
222386 CTACTTCCGC
* *
222396 TGCTGCTCTGGCTGCTTCTGT
1 TGCTGCTCTCGCTGCTTCTCT
*
222417 TGCTGCTCTCTCTGCTTCTCT
1 TGCTGCTCTCGCTGCTTCTCT
222438 TGCT
1 TGCT
222442 TCATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.33, G:0.22, T:0.46
Consensus pattern (21 bp):
TGCTGCTCTCGCTGCTTCTCT
Found at i:225755 original size:41 final size:41
Alignment explanation
Indices: 225679--225756 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
225669 CGTTTGCAAA
*
225679 CAAAACGCCACTACATGCCAAATATATTGCAGCGTTTACGC
1 CAAAACGCCACTACATGCCAAATATATAGCAGCGTTTACGC
* * *
225720 CAAAACGCCACTAC-TGGCCAACTCTATAGCGGCGTTT
1 CAAAACGCCACTACAT-GCCAAATATATAGCAGCGTTT
225757 GTATGACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.03
41 31 0.97
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (41 bp):
CAAAACGCCACTACATGCCAAATATATAGCAGCGTTTACGC
Found at i:225911 original size:41 final size:41
Alignment explanation
Indices: 225837--225922 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
225827 TTTTGCGGTG
* * * * *
225837 AAACGCCACTAAATTTTTACTATTTTACGGCATTTTTATAT
1 AAACGCCACTAAAGTATTACTATTTGACGGCATTTATATAA
* * *
225878 AAACGCCGCTAAAGTATTACTATTTGGCTGCATTTATATAA
1 AAACGCCACTAAAGTATTACTATTTGACGGCATTTATATAA
225919 AAAC
1 AAAC
225923 TCCGGTATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (41 bp):
AAACGCCACTAAAGTATTACTATTTGACGGCATTTATATAA
Found at i:226067 original size:41 final size:39
Alignment explanation
Indices: 225948--226068 Score: 102
Period size: 41 Copynumber: 2.9 Consensus size: 39
225938 AATATTACGA
* * *
225948 CGTTTGTTGCAAAAATGCCACTAAATATTACATCTATTAGGG
1 CGTTTGTT-CAAAAACGCCACTAAGTATGAC-TCT-TTAGGG
* * *
225990 CGTTTGTAT-AAAAACGCCACGATAGATCTG-CCCTTTAGTGG
1 CGTTTGT-TCAAAAACGCCACTA-AG-TATGACTCTTTAG-GG
226031 CGTTTGTTCAAAAACGCCACTACAGTATGACTCTTTAG
1 CGTTTGTTCAAAAACGCCACTA-AGTATGACTCTTTAG
226069 CGGCATTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
40 8 0.13
41 43 0.68
42 9 0.14
43 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (39 bp):
CGTTTGTTCAAAAACGCCACTAAGTATGACTCTTTAGGG
Found at i:227363 original size:44 final size:40
Alignment explanation
Indices: 227303--227397 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 40
227293 ATTTAACATT
227303 TTGCGGCGTTTATAAAAAACAAATGCCACTATTAATT-ACACCA
1 TTGCGGCGTTTAT---AAA-AAATGCCACTATTAATTAACACCA
* * * *
227346 TTGTGGCGTTTGTTAAAAAATGCCACTATTGATTAACACTA
1 TTGCGGCGTTT-ATAAAAAATGCCACTATTAATTAACACCA
227387 TTGCGGCGTTT
1 TTGCGGCGTTT
227398 TAAGAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 16 0.36
41 18 0.40
43 10 0.22
44 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (40 bp):
TTGCGGCGTTTATAAAAAATGCCACTATTAATTAACACCA
Found at i:227416 original size:42 final size:43
Alignment explanation
Indices: 227295--227458 Score: 128
Period size: 42 Copynumber: 3.9 Consensus size: 43
227285 CACTATATAT
* * * * *
227295 TTAACA-TTTTGCGGCGTTTATAAAAAACAAATGCCACTATTAA
1 TTAACACTATTGCGGCGTTTAT-AAGAATAAATACCACTATTGA
* * * * *
227338 TT-ACACCATTGTGGCGTTTGTTA-AA-AAATGCCACTATTGA
1 TTAACACTATTGCGGCGTTTATAAGAATAAATACCACTATTGA
227378 TTAACACTATTGCGGCGTTT-TAAGAATAAATACCACTATATG-
1 TTAACACTATTGCGGCGTTTATAAGAATAAATACCACTAT-TGA
* * *
227420 TGTAA-TCTATTGTGGCGTTT-TAAGAATAAATATCACTAT
1 T-TAACACTATTGCGGCGTTTATAAGAATAAATACCACTAT
227459 ATGTGTAATC
Statistics
Matches: 102, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
40 18 0.18
41 19 0.19
42 47 0.46
43 18 0.18
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (43 bp):
TTAACACTATTGCGGCGTTTATAAGAATAAATACCACTATTGA
Found at i:227459 original size:42 final size:42
Alignment explanation
Indices: 227384--227472 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
227374 TTGATTAACA
227384 CTATTGCGGCGTTTTAAGAATAAATACCACTATATGTGTAAT
1 CTATTGCGGCGTTTTAAGAATAAATACCACTATATGTGTAAT
* *
227426 CTATTGTGGCGTTTTAAGAATAAATATCACTATATGTGTAAT
1 CTATTGCGGCGTTTTAAGAATAAATACCACTATATGTGTAAT
227468 CTATT
1 CTATT
227473 ATTTATCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (42 bp):
CTATTGCGGCGTTTTAAGAATAAATACCACTATATGTGTAAT
Found at i:227610 original size:82 final size:82
Alignment explanation
Indices: 227523--227797 Score: 279
Period size: 82 Copynumber: 3.3 Consensus size: 82
227513 ATATGTTAAT
* *
227523 CTATTGTGGTGTTTTTGGTATAAACGCCGCTAATTTACCATTCTATTGCGGCGTTTGTTAAAAAA
1 CTATTGTGGCGTTTTTGGTAAAAACGCCGCTAATTTACCATTCTATTGCGGCGTTTGTTAAAAAA
*
227588 CGCCGCAATAAACCACC
66 CGCCGCAATAAACCAAC
* * * * *
227605 CTATTGCGGCGTTTTTTGTAAAAACGCCACTAATTTACCGA-TCTATTGTGGCGTTTTGCCT--A
1 CTATTGTGGCGTTTTTGGTAAAAACGCCGCTAATTTACC-ATTCTATTGCGGCG-TTTG-TTAAA
* * **** *
227667 AAACGCCACTATATGTTAAT
63 AAACGCCGCAATAAACCAAC
* *
227687 CTATTGTGGCGTTTATGGTAAAAACGCCGCTAATTTACCATTCTATTACGGCGTTTGTTAAAAAA
1 CTATTGTGGCGTTTTTGGTAAAAACGCCGCTAATTTACCATTCTATTGCGGCGTTTGTTAAAAAA
* * *
227752 TGACGCAATAAACCTTA-
66 CGCCGCAATAAACC-AAC
* *
227769 CTATTGTGGCATTTTTTTGTAAAAACGCC
1 CTATTGTGGC-GTTTTTGGTAAAAACGCC
227798 ACTATATGTT
Statistics
Matches: 151, Mismatches: 34, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
80 1 0.01
81 5 0.03
82 123 0.81
83 21 0.14
84 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (82 bp):
CTATTGTGGCGTTTTTGGTAAAAACGCCGCTAATTTACCATTCTATTGCGGCGTTTGTTAAAAAA
CGCCGCAATAAACCAAC
Found at i:227689 original size:40 final size:38
Alignment explanation
Indices: 227481--227723 Score: 127
Period size: 41 Copynumber: 6.0 Consensus size: 38
227471 TTATTTATCG
*
227481 ATCTATTGTGGCGTTTTGGCTAAAACACCACTATATGTTA
1 ATCTATTGTGGCGTTTT-GCTAAAACGCCACTATAT-TTA
* * *
227521 ATCTATTGTGGTGTTTTTGGTATAAACGCCGCTA-ATTTA
1 ATCTATTGTGGCG-TTTTGCTA-AAACGCCACTATATTTA
* * * * ***
227560 CCATTCTATTGCGGCG-TTTGTTAAAAAACGCCGCAATAAACCA
1 --A-TCTATTGTGGCGTTTTGCT--AAAACGCCACTAT-ATTTA
** *
227603 CCCTATTGCGGCGTTTTTTG-TAAAAACGCCACTA-ATTTA
1 ATCTATTGTGGCG--TTTTGCT-AAAACGCCACTATATTTA
227642 CCGATCTATTGTGGCGTTTTGCCTAAAACGCCACTATATGTTA
1 ---ATCTATTGTGGCGTTTTG-CTAAAACGCCACTATAT-TTA
* *
227685 ATCTATTGTGGCGTTTATGGTAAAAACGCCGCTA-ATTTA
1 ATCTATTGTGGCGTTT-TGCT-AAAACGCCACTATATTTA
227724 CCATTCTATT
Statistics
Matches: 159, Mismatches: 23, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
39 8 0.05
40 57 0.36
41 60 0.38
42 25 0.16
43 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (38 bp):
ATCTATTGTGGCGTTTTGCTAAAACGCCACTATATTTA
Found at i:227750 original size:164 final size:165
Alignment explanation
Indices: 227473--227801 Score: 525
Period size: 164 Copynumber: 2.0 Consensus size: 165
227463 GTAATCTATT
* * * *
227473 ATTTATCGATCTATTGTGGCGTTTTGGCTAAAACACCACTATATGTTAATCTATTGTGGTGTTTT
1 ATTTACCGATCTATTGTGGCGTTTTGCCTAAAACACCACTATATGTTAATCTATTGTGGCGTTTA
* * *
227538 TGGTATAAACGCCGCTAATTTACCATTCTATTGCGGCGTTTGTTAAAAAACGCCGCAATAAACCA
66 TGGTAAAAACGCCGCTAATTTACCATTCTATTACGGCGTTTGTTAAAAAACGACGCAATAAACCA
*
227603 CCCTATTGCGGC-GTTTTTTGTAAAAACGCCACTA
131 CACTATTGCGGCAGTTTTTTGTAAAAACGCCACTA
*
227637 ATTTACCGATCTATTGTGGCGTTTTGCCTAAAACGCCACTATATGTTAATCTATTGTGGCGTTTA
1 ATTTACCGATCTATTGTGGCGTTTTGCCTAAAACACCACTATATGTTAATCTATTGTGGCGTTTA
* *
227702 TGGTAAAAACGCCGCTAATTTACCATTCTATTACGGCGTTTGTTAAAAAATGACGCAATAAACCT
66 TGGTAAAAACGCCGCTAATTTACCATTCTATTACGGCGTTTGTTAAAAAACGACGCAATAAACCA
* * *
227767 TACTATTGTGGCATTTTTTTGTAAAAACGCCACTA
131 CACTATTGCGGCAGTTTTTTGTAAAAACGCCACTA
227802 TATGTTAAAT
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
164 129 0.86
165 21 0.14
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (165 bp):
ATTTACCGATCTATTGTGGCGTTTTGCCTAAAACACCACTATATGTTAATCTATTGTGGCGTTTA
TGGTAAAAACGCCGCTAATTTACCATTCTATTACGGCGTTTGTTAAAAAACGACGCAATAAACCA
CACTATTGCGGCAGTTTTTTGTAAAAACGCCACTA
Found at i:227860 original size:164 final size:163
Alignment explanation
Indices: 227502--227861 Score: 404
Period size: 164 Copynumber: 2.2 Consensus size: 163
227492 CGTTTTGGCT
* * * * * * *
227502 AAAACACCACTATATGTTAATCTATTGTGGTGTTTTTGGTATAAACGCCGCTAATTTACCATTCT
1 AAAACGCCACGATAAGTTAATCAATTGTGGCGTTTATGGTAAAAACGCCGCTAATTTACCATTCT
* * *
227567 ATTGCGGCGTTTGTTAAAAAACGCCGCAATAAACCACCCTATTGCGGCGTTTTTTGTAAAAACGC
66 ATTACGGCGTTTGTTAAAAAACGACGCAATAAACCACACTATTGCGGCGTTTTTTGTAAAAACGC
* ** * * *
227632 CACTAATTTACCGATCTATTGTGGCGTTTTGCCT
131 CACTAATTTA-CAATCTATTGCAGCATTTTGACA
* * *
227666 AAAACGCCACTATATGTTAATCTATTGTGGCGTTTATGGTAAAAACGCCGCTAATTTACCATTCT
1 AAAACGCCACGATAAGTTAATCAATTGTGGCGTTTATGGTAAAAACGCCGCTAATTTACCATTCT
* ** * *
227731 ATTACGGCGTTTGTTAAAAAATGACGCAATAAACCTTACTATTGTGGCATTTTTTTGTAAAAACG
66 ATTACGGCGTTTGTTAAAAAACGACGCAATAAACCACACTATTGCGGC-GTTTTTTGTAAAAACG
*
227796 CCACTATATGTTA-AATCTATTGCAGCATTTTTACA
130 CCACTA-AT-TTACAATCTATTGCAGCATTTTGACA
*
227831 ACAAACGCCGCGA-AAG-T-ATCAATTTGTGGCG
1 A-AAACGCCACGATAAGTTAATCAA-TTGTGGCG
227862 CTACGATTGT
Statistics
Matches: 168, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
163 4 0.02
164 111 0.66
165 39 0.23
166 11 0.07
167 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (163 bp):
AAAACGCCACGATAAGTTAATCAATTGTGGCGTTTATGGTAAAAACGCCGCTAATTTACCATTCT
ATTACGGCGTTTGTTAAAAAACGACGCAATAAACCACACTATTGCGGCGTTTTTTGTAAAAACGC
CACTAATTTACAATCTATTGCAGCATTTTGACA
Found at i:236095 original size:19 final size:20
Alignment explanation
Indices: 236071--236115 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
236061 TTTCTTTATT
236071 TATTTTTTAAAATT-ATAAA
1 TATTTTTTAAAATTAATAAA
* *
236090 TATTTTTTAATATTAATTAA
1 TATTTTTTAAAATTAATAAA
236110 TATTTT
1 TATTTT
236116 AAAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTAAAATTAATAAA
Found at i:237357 original size:25 final size:25
Alignment explanation
Indices: 237329--237397 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
237319 TTATCAACCG
*
237329 ACCCAAACAGTGAGCCCAATAGCCA
1 ACCCAAATAGTGAGCCCAATAGCCA
*
237354 ACCCAAATAGTGAGCCCAATAGCCG
1 ACCCAAATAGTGAGCCCAATAGCCA
*
237379 GCCCAAATAGTGAGCCCAA
1 ACCCAAATAGTGAGCCCAA
237398 CAGCGGGACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.38, C:0.33, G:0.19, T:0.10
Consensus pattern (25 bp):
ACCCAAATAGTGAGCCCAATAGCCA
Found at i:237371 original size:13 final size:13
Alignment explanation
Indices: 237330--237397 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
237320 TATCAACCGA
*
237330 CCCAAACAGTGAG
1 CCCAAATAGTGAG
** *
237343 CCC-AATAGCCAA
1 CCCAAATAGTGAG
237355 CCCAAATAGTGAG
1 CCCAAATAGTGAG
*
237368 CCC-AATAGCCG-G
1 CCCAAATAG-TGAG
237380 CCCAAATAGTGAG
1 CCCAAATAGTGAG
237393 CCCAA
1 CCCAA
237398 CAGCGGGACC
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
12 18 0.43
13 24 0.57
ACGTcount: A:0.37, C:0.34, G:0.19, T:0.10
Consensus pattern (13 bp):
CCCAAATAGTGAG
Found at i:237409 original size:25 final size:25
Alignment explanation
Indices: 237331--237411 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
237321 ATCAACCGAC
* * *
237331 CCAAACAGTGAGCCCAATAGCC-AA
1 CCAAATAGTGAGCCCAACAGCCGGA
* *
237355 CCCAAATAGTGAGCCCAATAGCCGGC
1 -CCAAATAGTGAGCCCAACAGCCGGA
*
237381 CCAAATAGTGAGCCCAACAGCGGGA
1 CCAAATAGTGAGCCCAACAGCCGGA
237406 CCAAAT
1 CCAAAT
237412 TGCAATAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.37, C:0.32, G:0.21, T:0.10
Consensus pattern (25 bp):
CCAAATAGTGAGCCCAACAGCCGGA
Found at i:239307 original size:17 final size:18
Alignment explanation
Indices: 239279--239328 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
239269 CCATTAAAAC
*
239279 ATTTTTTCATTTTAATTT
1 ATTTTTTAATTTTAATTT
*
239297 ATTTTTT-ATTTGCAATTT
1 ATTTTTTAATTT-TAATTT
239315 -TTTTTTAATTTTAA
1 ATTTTTTAATTTTAA
239329 AAAGTATGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTTAATTTTAATTT
Found at i:241874 original size:24 final size:24
Alignment explanation
Indices: 241830--241879 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
241820 ATAAAGAACC
*
241830 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
241854 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
241878 AA
1 AA
241880 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:243026 original size:9 final size:9
Alignment explanation
Indices: 243014--243045 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
243004 TTTACTCCTT
243014 TTTTTTTGA
1 TTTTTTTGA
243023 -TTTTTTGA
1 TTTTTTTGA
243031 TTTTTTTG-
1 TTTTTTTGA
243039 TTTTTTT
1 TTTTTTT
243046 TTAAAACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:251344 original size:17 final size:16
Alignment explanation
Indices: 251313--251355 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
251303 GAGAAATGGT
*
251313 AAAGACAAT-AAATAA
1 AAAGAAAATAAAATAA
251328 AAAGATAAATAAAATAA
1 AAAGA-AAATAAAATAA
*
251345 GAAGAAAATAA
1 AAAGAAAATAA
251356 TCCTCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 10 0.42
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAGAAAATAAAATAA
Found at i:251874 original size:24 final size:24
Alignment explanation
Indices: 251830--251879 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
251820 ATAAAGAACC
*
251830 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
251854 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
251878 AA
1 AA
251880 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:264123 original size:20 final size:19
Alignment explanation
Indices: 264095--264132 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
264085 TTTTGTTTCA
264095 AAAATAAAACAAAACATTT
1 AAAATAAAACAAAACATTT
*
264114 AAAATAAAAATAAAACATT
1 AAAAT-AAAACAAAACATT
264133 ATTTGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAATAAAACAAAACATTT
Found at i:264604 original size:97 final size:97
Alignment explanation
Indices: 264467--264645 Score: 245
Period size: 97 Copynumber: 1.8 Consensus size: 97
264457 CTAGGAGTGG
* * * *
264467 CACCTTTCTGCCAAAATGCATCGTTATGCATTTAAGTTTCATT-TGTGGCACCTTTCAGCCAA-A
1 CACCTTTCTGCCAAAATGCACCATTATCCATTTAAGTTTCATTAT-TGGCACATTTCAGCCAATA
264530 ATGCACCATTATGCATTTAATTTTCATTAATGT
65 ATGCACCATTATGCATTTAATTTTCATTAATGT
* * **
264563 CACCTTTTTGCCAAAAATGCACCATTATCCATTTAATTTTCATTATTGGCACATTTCTTCCAATA
1 CACCTTTCTGCC-AAAATGCACCATTATCCATTTAAGTTTCATTATTGGCACATTTCAGCCAATA
*
264628 ATGCACCGTTATGCATTT
65 ATGCACCATTATGCATTT
264646 TCGTTTATGG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
96 11 0.15
97 41 0.58
98 19 0.27
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (97 bp):
CACCTTTCTGCCAAAATGCACCATTATCCATTTAAGTTTCATTATTGGCACATTTCAGCCAATAA
TGCACCATTATGCATTTAATTTTCATTAATGT
Found at i:264664 original size:44 final size:44
Alignment explanation
Indices: 264464--264873 Score: 378
Period size: 44 Copynumber: 9.0 Consensus size: 44
264454 AGACTAGGAG
* * *
264464 TGGCACCTTTCTGCCAA-AATGCATCGTTATGCATTTAAGTTTCATTTG
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCA--T---TTTCATTTA
* * * *
264512 TGGCACCTTTCAGCCAA-AATGCACCATTATGCATTTAATTTTCATTAA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGC-----ATTTTCATTTA
* * * * * *
264560 TGTCACCTTTTTGCCAAAAATGCACCATTATCCATTTAATTTTCA-TTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGC-----ATTTTCATTTA
* *
264608 TTGGCACATTTCTTCCAATAATGCACCGTTATGCATTTTCGTTTA
1 -TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
264653 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * * *
264697 TGACACATTTTTGTCAATAATGTACCGTTATGTATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
264741 TGGCACCTTTCAG-CATATAATGCACCATTATGCATTTTCATTTA
1 TGGCACATTTCTGCCA-ATAATGCACCGTTATGCATTTTCATTTA
* * * *
264785 TGGCACCTTTCTGCCAATATTACACCGTTATGCATTTTCATCTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
264829 TGGCATATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
264873 T
1 T
264874 TCATTCATTT
Statistics
Matches: 308, Mismatches: 44, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.01
44 195 0.63
45 5 0.02
48 52 0.17
49 52 0.17
51 1 0.00
53 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (44 bp):
TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:272021 original size:16 final size:16
Alignment explanation
Indices: 272000--272030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
271990 TAAATTAATT
*
272000 GTGTTCATCGTTACTG
1 GTGTTCATCGGTACTG
272016 GTGTTCATCGGTACT
1 GTGTTCATCGGTACT
272031 CATCGAGTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (16 bp):
GTGTTCATCGGTACTG
Found at i:277224 original size:188 final size:188
Alignment explanation
Indices: 276900--277275 Score: 672
Period size: 187 Copynumber: 2.0 Consensus size: 188
276890 CTATAGCATT
276900 TCTGGCCAGTTTGTTGGTAAATCTTATGCGACTTGGGTGCCACATTAATTGATACCCTTATCGAC
1 TCTGGCCAGTTTGTTGGTAAATCTTATGCGACTTGGGTGCCACATTAATTGATACCCTTATCGAC
276965 ATCTTTTTCACCCAGGCGGGGAAAAAACCAATACCGACAGTTTTGTGACTCCGATGGGAAAATTA
66 ATCTTTTTCACCCAGGCGGGGAAAAAACCAATACCGACAGTTTTGTGACTCCGATGGGAAAATTA
277030 GCACCCCCAC-AGCGTCC-AA-ATTGGTACCTAGTTGATTATCCTACATTTAGAATCAG
131 GCACCCCCACAAGCGTCCAAATATTGGTACCTAGTTGATTAT-CTACATTTAGAATCAG
277086 TCTGGCCAGTTTGTTGGTAAATCTTTATGCGACTTGGGTGCCAACATTAATTTGATA-CCTTATC
1 TCTGGCCAGTTTGTTGGTAAATC-TTATGCGACTTGGGTGCC-ACATTAA-TTGATACCCTTATC
277150 GACATCTTTTTCACCCAGGCGGGG-AAAAACCAATACCGACAGTTTTGTGACTCCGATGGGAAGA
63 GACATCTTTTTCACCCAGGCGGGGAAAAAACCAATACCGACAGTTTTGTGACTCCGATGGGAA-A
277214 ATTAGCACCCCCACAAGCGTCCAAATATTGGTACCTAGTTGATTATCTACATTTAGAATCAG
127 ATTAGCACCCCCACAAGCGTCCAAATATTGGTACCTAGTTGATTATCTACATTTAGAATCAG
277276 AAATTTTGAA
Statistics
Matches: 183, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
186 23 0.13
187 56 0.31
188 53 0.29
189 13 0.07
190 18 0.10
191 20 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (188 bp):
TCTGGCCAGTTTGTTGGTAAATCTTATGCGACTTGGGTGCCACATTAATTGATACCCTTATCGAC
ATCTTTTTCACCCAGGCGGGGAAAAAACCAATACCGACAGTTTTGTGACTCCGATGGGAAAATTA
GCACCCCCACAAGCGTCCAAATATTGGTACCTAGTTGATTATCTACATTTAGAATCAG
Found at i:277698 original size:34 final size:35
Alignment explanation
Indices: 277649--277729 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
277639 ATTAAGTTAG
* *
277649 TAATTCCTTAAATAGGTTCAAC-TCGATCAATTGA
1 TAATTCCTTATATAGGGTCAACATCGATCAATTGA
* * *
277683 TAATTACTTATATAGGGTCAACATCGATCAGTTGG
1 TAATTCCTTATATAGGGTCAACATCGATCAATTGA
277718 TAATTCCTTATA
1 TAATTCCTTATA
277730 GACCTAAGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 19 0.47
35 21 0.52
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (35 bp):
TAATTCCTTATATAGGGTCAACATCGATCAATTGA
Done.